| Back to Long Tests report for BioC 3.20 |
This page was generated on 2024-11-16 23:55 -0500 (Sat, 16 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4765 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4538 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 6/32 | Hostname | OS / Arch | CHECK | |||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | |||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | ||||||||
|
To the developers/maintainers of the biodbChebi package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.12.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.12.0.tar.gz |
| StartedAt: 2024-11-16 16:01:07 -0500 (Sat, 16 Nov 2024) |
| EndedAt: 2024-11-16 16:08:06 -0500 (Sat, 16 Nov 2024) |
| EllapsedTime: 419.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
biodbChebi.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-11-16 16:05:32.690][biodb::testContext]
biodb.INFO [2024-11-16 16:05:32.694][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-16 16:05:32.694][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-11-16 16:05:32.695][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-16 16:05:32.696][biodb::testContext]
biodb.INFO [2024-11-16 16:05:32.702][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-16 16:05:32.704][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-16 16:05:32.711][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-16 16:05:32.712][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-16 16:05:32.713][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-16 16:05:32.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.717][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-16 16:05:32.733][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-16 16:05:32.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.736][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-16 16:05:32.737][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-16 16:05:32.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.740][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-16 16:05:32.741][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-16 16:05:32.742][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-16 16:05:32.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.756][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-16 16:05:32.757][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-16 16:05:32.758][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-16 16:05:32.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.761][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-16 16:05:32.762][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-16 16:05:32.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.765][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-16 16:05:32.766][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-16 16:05:32.767][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-16 16:05:32.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.770][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-16 16:05:32.770][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-16 16:05:32.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.773][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-16 16:05:32.774][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-16 16:05:32.775][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-16 16:05:32.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.778][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-16 16:05:32.779][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-16 16:05:32.780][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-16 16:05:32.780][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-16 16:05:32.781][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-16 16:05:32.782][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-16 16:05:32.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.785][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-16 16:05:32.786][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-16 16:05:32.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.789][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-16 16:05:32.790][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-16 16:05:32.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.793][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-16 16:05:32.794][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-16 16:05:32.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.796][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-16 16:05:32.797][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-16 16:05:32.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.800][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-16 16:05:32.801][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-16 16:05:32.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.804][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-16 16:05:32.804][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-16 16:05:32.822][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-16 16:05:32.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.826][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-16 16:05:32.826][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-16 16:05:32.827][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-16 16:05:32.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.832][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-16 16:05:32.858][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.870][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-16 16:05:32.872][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.872][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-16 16:05:32.873][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.874][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.875][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.876][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.877][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-16 16:05:32.878][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-16 16:05:32.878][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.879][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-16 16:05:32.880][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-16 16:05:32.881][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.882][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.883][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-16 16:05:32.883][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-16 16:05:32.883][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-16 16:05:32.883][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-16 16:05:32.883][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-16 16:05:32.884][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-16 16:05:32.884][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.885][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.886][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-16 16:05:32.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.889][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-16 16:05:32.890][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-16 16:05:32.891][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.892][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.893][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-16 16:05:32.894][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.895][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-16 16:05:32.896][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.897][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-16 16:05:32.898][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.898][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.899][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.900][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.901][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-16 16:05:32.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-16 16:05:32.902][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.903][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-16 16:05:32.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-16 16:05:32.905][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.906][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.907][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-16 16:05:32.907][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-16 16:05:32.907][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-16 16:05:32.907][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-16 16:05:32.907][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-16 16:05:32.908][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-16 16:05:32.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.910][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-16 16:05:32.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.912][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.913][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-16 16:05:32.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-16 16:05:32.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.916][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.917][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-16 16:05:32.918][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.919][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-16 16:05:32.920][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.921][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-16 16:05:32.922][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.922][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.923][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.924][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.925][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-16 16:05:32.926][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-16 16:05:32.931][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.932][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-16 16:05:32.933][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-16 16:05:32.933][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.934][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.935][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.936][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-16 16:05:32.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-16 16:05:32.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.939][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.940][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.941][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.941][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-16 16:05:32.942][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-16 16:05:32.943][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.944][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.945][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-16 16:05:32.946][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.947][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-16 16:05:32.948][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-16 16:05:32.949][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.950][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.951][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.952][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-16 16:05:32.953][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-16 16:05:32.953][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.954][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-16 16:05:32.955][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-16 16:05:32.956][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.956][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:32.957][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.958][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-16 16:05:32.959][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.959][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.960][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-16 16:05:32.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:32.962][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:32.962][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-16 16:05:32.963][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.964][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-16 16:05:32.964][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-16 16:05:32.965][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:32.966][self$setPropertyValue]
biodb.DEBUG[2024-11-16 16:05:32.969][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-16 16:05:32.969][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:32.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:32.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:32.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:32.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:32.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.028][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-16 16:05:33.032][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-16 16:05:33.033][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-16 16:05:33.034][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-16 16:05:33.036][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-16 16:05:33.037][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-16 16:05:33.038][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-16 16:05:33.039][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-16 16:05:33.040][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-16 16:05:33.041][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-16 16:05:33.043][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-16 16:05:33.044][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-16 16:05:33.045][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-16 16:05:33.046][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-16 16:05:33.047][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-16 16:05:33.048][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-16 16:05:33.049][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-16 16:05:33.050][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-16 16:05:33.052][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-16 16:05:33.053][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-16 16:05:33.054][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-16 16:05:33.055][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-16 16:05:33.056][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-16 16:05:33.057][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-16 16:05:33.058][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-16 16:05:33.059][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-16 16:05:33.060][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-16 16:05:33.062][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-16 16:05:33.063][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-16 16:05:33.064][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-16 16:05:33.065][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-16 16:05:33.066][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-16 16:05:33.067][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-16 16:05:33.068][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-16 16:05:33.069][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-16 16:05:33.070][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-16 16:05:33.072][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-16 16:05:33.072][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-16 16:05:33.073][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-16 16:05:33.074][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-16 16:05:33.075][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-16 16:05:33.076][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-16 16:05:33.078][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-16 16:05:33.079][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-16 16:05:33.080][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-16 16:05:33.086][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-16 16:05:33.086][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-16 16:05:33.088][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-16 16:05:33.089][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-16 16:05:33.090][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-16 16:05:33.091][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-16 16:05:33.092][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-16 16:05:33.093][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-16 16:05:33.094][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-16 16:05:33.095][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-16 16:05:33.096][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-16 16:05:33.097][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-16 16:05:33.099][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-16 16:05:33.100][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-16 16:05:33.101][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-16 16:05:33.102][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-16 16:05:33.103][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-16 16:05:33.104][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-16 16:05:33.105][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-16 16:05:33.106][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-16 16:05:33.107][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-16 16:05:33.108][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-16 16:05:33.109][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-16 16:05:33.110][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-16 16:05:33.111][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-16 16:05:33.112][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-16 16:05:33.113][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-16 16:05:33.114][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-16 16:05:33.115][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-16 16:05:33.116][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-16 16:05:33.118][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-16 16:05:33.119][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-16 16:05:33.120][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-16 16:05:33.121][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-16 16:05:33.122][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-16 16:05:33.123][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-16 16:05:33.124][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-16 16:05:33.125][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-16 16:05:33.129][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-16 16:05:33.130][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-16 16:05:33.133][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-16 16:05:33.133][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.135][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-16 16:05:33.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:33.222][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-16 16:05:33.234][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-16 16:05:33.236][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:33.237][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-16 16:05:33.238][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:33.238][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-16 16:05:33.239][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:33.240][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-16 16:05:33.241][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:33.241][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-16 16:05:33.242][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-16 16:05:33.243][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-16 16:05:33.244][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:33.244][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-16 16:05:33.245][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-16 16:05:33.246][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-16 16:05:33.247][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-16 16:05:33.248][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-16 16:05:33.248][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-16 16:05:33.248][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-16 16:05:33.249][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-16 16:05:33.249][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:33.250][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:33.251][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-16 16:05:33.251][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-16 16:05:33.252][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-16 16:05:33.253][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-16 16:05:33.254][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:33.254][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-16 16:05:33.255][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-16 16:05:33.255][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-16 16:05:33.256][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-16 16:05:33.257][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-16 16:05:33.257][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-16 16:05:33.261][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-16 16:05:33.263][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-16 16:05:33.264][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-16 16:05:33.265][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-16 16:05:33.266][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-16 16:05:33.267][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-16 16:05:33.285][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-16 16:05:33.286][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-16 16:05:33.289][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-16 16:05:33.293][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-16 16:05:33.296][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-16 16:05:33.297][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-16 16:05:33.298][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-16 16:05:33.298][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-16 16:05:33.306][biodb::testThat]
biodb.INFO [2024-11-16 16:05:33.307][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-16 16:05:33.307][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:33.308][biodb::testThat]
biodb.TRACE[2024-11-16 16:05:33.311][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-11-16 16:05:33.313][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:33.315][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:33.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:33.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:33.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:33.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:33.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:33.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:33.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:33.346][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.347][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.349][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.362][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.363][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.383][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.387][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.389][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.403][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.405][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.409][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.410][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.415][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.416][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.418][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.421][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:33.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.424][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:33.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.427][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.430][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.434][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.434][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.436][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.440][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:33.441][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.442][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:33.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:33.508][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-11-16 16:05:33.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.573][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:33.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:33.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:33.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:33.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.579][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:33.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:33.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.582][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:33.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.665][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.666][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.667][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.694][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:33.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.715][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:33.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:33.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.739][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.740][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.742][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.762][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.763][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.764][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.785][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.786][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.798][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.802][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.805][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.812][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.815][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.825][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.828][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.835][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.838][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.838][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.849][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.853][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.856][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.860][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.861][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.862][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.879][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.882][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.882][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.884][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:33.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.904][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.905][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.906][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.926][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.927][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.940][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:33.940][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:33.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.946][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.951][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:33.952][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:33.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.953][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.958][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:33.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:33.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.964][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:33.965][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:33.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.970][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.971][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:33.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.972][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.976][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.977][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:33.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.979][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.983][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.984][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:33.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.985][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:33.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.992][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:33.996][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:33.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:33.999][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.003][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.005][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.010][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.010][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.012][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.026][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2024-11-16 16:05:34.051][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:34.052][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:34.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:34.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:34.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:34.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:34.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:34.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:34.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:34.063][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.064][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.087][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.088][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.089][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.094][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.096][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.101][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.101][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.103][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.107][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.108][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.110][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.114][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.115][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.118][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.121][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.122][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.124][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.125][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.128][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.129][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.130][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.134][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.135][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.140][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:34.141][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.142][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.143][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:34.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.147][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.147][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.149][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:34.184][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2024-11-16 16:05:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.220][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:34.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:34.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:34.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:34.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.300][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.301][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.302][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.330][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.351][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.352][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.353][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.368][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.374][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.377][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.389][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.398][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.399][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.401][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.401][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.421][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.443][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.443][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.445][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.466][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.468][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.469][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.470][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.484][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.487][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.490][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.491][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.492][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.493][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.503][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.509][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.514][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.526][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.529][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.535][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.536][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.538][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.556][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.557][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.558][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.578][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.582][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.594][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.595][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.596][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.600][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.607][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.616][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.620][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.621][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.623][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.626][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.627][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.629][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.633][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.634][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.635][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.639][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.641][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.645][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.646][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.651][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.652][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.654][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.658][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.659][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.664][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2024-11-16 16:05:34.665][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:34.666][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:34.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:34.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:34.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:34.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:34.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:34.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:34.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:34.676][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.677][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.683][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.683][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.685][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.689][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.690][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.691][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:34.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.695][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.696][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.701][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.702][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.703][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.707][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.708][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.709][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.710][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.717][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.718][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.719][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.720][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:34.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.724][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.729][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.731][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:34.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:34.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.735][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:34.736][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.737][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.738][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:34.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:34.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.741][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.742][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.744][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:34.777][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2024-11-16 16:05:34.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.797][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.800][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:34.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.803][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:34.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:34.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.805][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:34.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:34.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:34.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.870][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.871][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.872][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:34.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.886][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.893][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.895][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:34.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:34.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.916][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.916][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.918][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:34.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:34.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.937][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.938][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.940][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:34.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.957][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.960][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.960][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.962][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:34.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.986][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.988][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:34.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:34.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:34.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.009][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.010][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.020][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:35.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:35.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.029][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:35.030][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:35.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.031][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.032][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:35.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:35.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.042][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.048][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.051][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.052][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.053][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:35.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:35.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.067][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:35.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:35.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:35.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:35.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.074][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:35.074][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:35.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.076][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:35.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:35.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:35.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:35.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.100][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:35.101][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:35.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.102][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:35.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.113][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:35.113][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:35.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.119][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:35.120][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:35.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.121][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.125][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:35.126][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:35.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.128][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:35.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:35.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.134][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:35.139][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:35.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.145][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:35.146][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:35.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.152][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:35.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:35.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.159][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:35.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.161][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.165][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.166][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:35.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.167][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.172][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:35.173][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:35.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.174][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:35.179][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:35.179][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:35.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:35.181][ef$get] fields variable is a list.
biodb.INFO [2024-11-16 16:05:35.188][biodb::testThat]
biodb.INFO [2024-11-16 16:05:35.189][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-16 16:05:35.189][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:35.190][biodb::testThat]
biodb.DEBUG[2024-11-16 16:05:35.192][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2024-11-16 16:05:35.197][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-11-16 16:05:35.200][cch$loadFileContent] Trying to load 3 files from cache: [3]: "15440, 2528, 7799".
biodb.TRACE[2024-11-16 16:05:35.202][cch$loadFileContent] file.exist = [3]: "FALSE, TRUE, TRUE".
biodb.TRACE[2024-11-16 16:05:35.204][loadFileContents] Loaded 2 files from cache: [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-11-16 16:05:35.205][conn$getEntryContent] 2 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:35.206][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:35.206][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:35.207][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:35.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:35.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:35.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:35.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:35.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:35.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:35.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:35.220][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.DEBUG[2024-11-16 16:05:35.240][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:35.241][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:35.242][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.TRACE[2024-11-16 16:05:36.341][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
biodb.DEBUG[2024-11-16 16:05:36.754][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:36.756][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.content"
biodb.TRACE[2024-11-16 16:05:36.767][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.request"
biodb.TRACE[2024-11-16 16:05:36.769][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml"
biodb.DEBUG[2024-11-16 16:05:36.771][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:36.771][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-11-16 16:05:36.772][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:36.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:36.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:36.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:36.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:36.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:36.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:36.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:36.794][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.795][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.800][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:36.801][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:36.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.802][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.803][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:36.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.806][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:36.806][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:36.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:36.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:36.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.812][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:36.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:36.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:36.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.819][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.819][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.825][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.825][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.828][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.831][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:36.832][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:36.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.835][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:36.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:36.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.837][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.838][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.840][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.844][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:36.845][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:36.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.846][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:36.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:36.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.850][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:36.851][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:36.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.852][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.854][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:36.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:36.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.857][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:36.857][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:36.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.859][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.860][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:36.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:36.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:36.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:36.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:36.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:36.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:36.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:36.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:36.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:36.898][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.905][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:36.906][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:36.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.908][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:36.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:36.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.911][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:36.912][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:36.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:36.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:36.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.919][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:36.919][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:36.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:36.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:36.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.926][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:36.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.931][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.932][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.933][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.934][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:36.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.937][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:36.938][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:36.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.940][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.941][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:36.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:36.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.944][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.945][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.947][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:36.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.951][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:36.952][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:36.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.953][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:36.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:36.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.957][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:36.958][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:36.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.959][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.960][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:36.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:36.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:36.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:36.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:36.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:36.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:36.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:36.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:36.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:36.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:36.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:36.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:36.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:36.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:37.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:37.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:37.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:37.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:37.006][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.008][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.012][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:37.013][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:37.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.014][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.015][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:37.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:37.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.018][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:37.019][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:37.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.021][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:37.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:37.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.025][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:37.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:37.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.027][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:37.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:37.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.033][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.037][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:37.038][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:37.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.039][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.040][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:37.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:37.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.044][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:37.044][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.046][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.047][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:37.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.050][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:37.051][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:37.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.052][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:37.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:37.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.056][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.059][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.063][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:37.064][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:37.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.065][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.066][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:37.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.070][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:37.071][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:37.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.072][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.073][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:37.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:37.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:37.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:37.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:37.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:37.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:37.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:37.132][self$createEntryFromContent] Accession numbers: 15440, 2528, 7799.
biodb.TRACE[2024-11-16 16:05:37.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-16 16:05:37.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-16 16:05:37.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-16 16:05:37.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-16 16:05:37.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-16 16:05:37.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-16 16:05:37.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-16 16:05:37.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-16 16:05:37.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-16 16:05:37.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-16 16:05:37.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-16 16:05:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-16 16:05:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-16 16:05:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-16 16:05:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-16 16:05:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-16 16:05:37.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-16 16:05:37.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-16 16:05:37.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:05:37.175][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.176][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-16 16:05:37.176][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:37.177][biodb::testThat]
biodb.TRACE[2024-11-16 16:05:37.179][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.180][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.182][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:37.183][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-11-16 16:05:37.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:37.220][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-11-16 16:05:37.237][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-16 16:05:37.240][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:37.252][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-16 16:05:37.253][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:37.254][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-16 16:05:37.257][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:37.260][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:37.261][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:37.262][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:37.263][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-16 16:05:37.264][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-11-16 16:05:37.276][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:37.277][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:37.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.284][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.284][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.286][ef$get] fields variable is a list.
biodb.INFO [2024-11-16 16:05:37.289][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.290][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-16 16:05:37.291][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:37.292][biodb::testThat]
biodb.TRACE[2024-11-16 16:05:37.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:37.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:37.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:37.359][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:37.362][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:37.363][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:37.368][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:37.369][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-11-16 16:05:37.383][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.384][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-16 16:05:37.385][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:37.386][biodb::testThat]
biodb.TRACE[2024-11-16 16:05:37.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:37.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:37.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:37.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.414][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.417][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:37.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.420][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:37.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:37.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:37.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:37.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:37.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:37.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:37.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:37.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.446][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.449][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-16 16:05:37.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.452][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:37.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-16 16:05:37.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:37.455][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:37.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-16 16:05:37.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:37.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:05:37.481][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.482][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-16 16:05:37.483][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:37.483][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.491][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.492][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-16 16:05:37.492][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:37.493][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.501][biodb::testThat]
biodb.INFO [2024-11-16 16:05:37.502][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-16 16:05:37.503][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:37.503][biodb::testThat]
biodb.DEBUG[2024-11-16 16:05:37.506][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-11-16 16:05:37.994][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-11-16 16:05:39.029][biodb::testThat]
biodb.INFO [2024-11-16 16:05:39.030][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-16 16:05:39.031][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:39.031][biodb::testThat]
biodb.DEBUG[2024-11-16 16:05:39.398][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-11-16 16:05:40.007][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:40.008][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:40.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.009][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:40.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:40.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.012][ef$get] fields variable is a list.
biodb.INFO [2024-11-16 16:05:40.014][biodb::testThat]
biodb.INFO [2024-11-16 16:05:40.014][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2024-11-16 16:05:40.015][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:40.016][biodb::testThat]
biodb.TRACE[2024-11-16 16:05:40.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:40.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:40.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:40.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:40.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:40.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:40.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:40.102][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:40.105][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:40.106][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:40.107][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:40.108][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-16 16:05:40.156][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:40.159][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:40.160][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:40.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:40.162][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-11-16 16:05:40.175][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:05:40.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:05:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:40.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:40.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:40.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:40.203][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:40.206][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:40.208][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:05:40.209][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:40.213][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:05:40.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:40.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:40.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:40.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:40.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:40.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:40.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:40.224][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-11-16 16:05:40.265][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:40.266][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-11-16 16:05:40.267][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:40.268][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:40.269][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:40.270][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:40.271][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:40.272][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:40.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:40.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:40.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:40.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:40.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:40.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:40.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:40.291][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-11-16 16:05:40.303][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:40.304][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:40.315][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-11-16 16:05:40.647][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-11-16 16:05:40.985][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:40.987][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-11-16 16:05:40.990][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-11-16 16:05:40.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-11-16 16:05:40.993][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:40.994][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:40.995][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:40.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:40.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:40.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:41.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:41.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:41.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:41.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:41.006][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.009][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.013][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:41.013][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:41.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.015][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:41.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:41.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.019][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:41.019][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:41.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.021][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:41.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.025][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:41.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:41.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.027][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:41.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.033][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.037][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:41.037][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:41.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.039][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.040][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:41.041][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.042][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.043][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:41.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.046][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.047][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.048][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.052][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:41.053][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:41.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.054][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:41.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:41.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.058][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:41.059][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:41.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.060][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.061][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:41.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:41.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.064][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:41.065][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:41.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.067][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:41.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:41.106][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-11-16 16:05:41.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:41.122][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:41.125][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:41.126][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:05:41.127][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:41.130][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:05:41.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:41.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:41.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:41.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:41.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:41.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:41.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:41.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:41.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:41.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:41.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:41.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:41.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:41.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:41.173][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-11-16 16:05:41.173][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:41.174][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-11-16 16:05:41.175][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:41.176][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:41.177][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:41.178][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:41.178][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:41.179][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:41.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:41.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:41.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:41.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:41.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:41.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:41.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:41.190][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-11-16 16:05:41.192][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:41.193][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:41.194][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-11-16 16:05:41.526][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-11-16 16:05:41.858][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:41.860][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-11-16 16:05:41.863][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-11-16 16:05:41.866][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-11-16 16:05:41.867][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:41.869][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:41.870][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:41.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:41.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:41.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:41.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:41.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:41.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:41.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:41.885][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.886][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.896][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:41.897][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:41.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.899][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:41.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:41.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.904][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:41.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:41.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.908][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:41.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:41.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.911][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:41.912][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:41.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:41.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:41.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.919][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:41.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.935][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:41.936][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:41.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.939][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:41.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.942][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.943][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:41.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.946][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.947][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.949][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.953][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:41.954][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:41.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.956][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:41.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:41.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.961][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:41.962][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:41.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.963][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:41.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.968][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:41.968][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:41.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:41.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:41.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:41.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:41.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:41.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:42.005][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-11-16 16:05:42.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:42.036][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:42.039][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:42.040][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:42.041][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:42.042][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-16 16:05:42.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:42.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:42.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:42.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:42.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:42.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:42.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:42.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:42.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:42.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:42.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:42.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:42.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:42.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:42.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:42.073][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-11-16 16:05:42.074][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:42.075][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-11-16 16:05:42.076][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:42.077][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:42.078][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:42.079][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:42.080][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:42.081][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:42.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:42.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:42.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:42.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:42.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:42.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:42.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:42.092][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-11-16 16:05:42.094][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:42.095][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:42.096][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-11-16 16:05:42.426][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-11-16 16:05:42.758][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:42.760][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-11-16 16:05:42.763][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-11-16 16:05:42.765][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-11-16 16:05:42.766][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:42.767][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:42.768][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:42.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:42.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:42.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:42.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:42.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:42.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:42.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:42.779][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.792][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:42.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:42.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.795][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:42.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:42.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.799][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:42.799][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:42.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.801][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.802][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:42.803][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:42.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.805][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:42.806][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:42.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.807][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.808][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:42.809][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.812][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:42.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:42.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.815][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:42.816][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:42.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:42.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:42.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.821][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:42.822][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:42.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.825][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:42.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:42.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.829][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:42.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:42.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:42.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:42.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:42.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:42.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:42.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:42.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:42.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:42.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:42.863][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-11-16 16:05:42.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:42.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:42.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:42.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:42.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:42.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:42.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:42.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:42.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:42.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:42.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:42.892][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-11-16 16:05:42.893][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:42.894][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-11-16 16:05:42.895][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:42.896][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:42.897][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:42.897][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:42.898][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:42.899][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:42.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:42.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:42.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:42.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:42.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:42.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:42.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:42.909][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-11-16 16:05:42.911][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:42.912][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:42.913][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-11-16 16:05:43.245][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-11-16 16:05:43.575][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:43.577][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-11-16 16:05:43.580][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-11-16 16:05:43.582][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-11-16 16:05:43.584][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:43.585][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:43.586][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:43.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:43.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:43.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:43.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:43.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:43.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:43.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:43.597][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.604][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:43.605][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:43.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.606][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.607][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:43.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:43.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:43.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:43.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.614][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:43.615][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:43.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.616][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.617][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:43.618][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:43.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.620][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.621][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:43.621][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.623][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.624][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:43.625][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:43.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.627][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.628][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:43.629][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:43.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.637][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:43.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.642][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:43.643][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:43.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.645][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:43.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.649][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:43.649][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:43.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.651][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:43.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:43.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:43.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:43.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:43.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:43.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:43.684][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-11-16 16:05:43.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:43.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:43.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:43.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:43.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:43.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:43.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:43.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:43.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:43.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:43.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:43.709][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-11-16 16:05:43.710][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:43.711][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-11-16 16:05:43.712][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:43.713][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:43.714][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:43.715][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:43.716][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:43.717][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:43.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:43.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:43.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:43.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:43.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:43.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:43.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:43.732][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-11-16 16:05:43.734][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:43.735][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:43.736][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-11-16 16:05:44.069][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-11-16 16:05:44.402][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:44.404][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-11-16 16:05:44.407][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-11-16 16:05:44.409][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-11-16 16:05:44.410][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:44.411][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:44.412][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:44.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:44.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:44.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:44.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:44.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:44.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:44.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:44.424][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.426][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.431][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:44.431][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:44.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.433][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.434][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:44.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:44.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.437][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:44.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:44.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.440][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:44.442][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:44.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.443][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.444][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:44.445][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:44.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.448][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:44.448][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:44.451][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:44.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.453][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.454][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:44.455][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:44.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:44.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:44.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:44.463][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:44.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:44.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:44.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:44.469][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:44.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.471][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:44.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:44.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:44.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:44.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:44.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:44.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:44.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:44.512][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-11-16 16:05:44.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:44.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:44.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:44.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:44.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:44.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:44.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:44.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:44.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:44.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:44.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:44.539][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-11-16 16:05:44.540][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:44.541][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-11-16 16:05:44.542][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:44.543][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:44.543][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:44.544][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:44.545][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:44.546][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:44.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:44.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:44.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:44.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:44.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:44.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:44.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:44.557][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-11-16 16:05:44.559][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:44.560][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:44.561][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-11-16 16:05:44.895][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-11-16 16:05:45.228][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:45.231][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-11-16 16:05:45.234][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-11-16 16:05:45.236][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-11-16 16:05:45.237][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:45.239][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:45.240][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:45.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:45.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:45.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:45.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:45.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:45.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:45.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:45.258][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.265][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:45.265][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:45.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.267][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.268][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:45.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:45.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.271][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:45.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:45.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.273][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:45.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:45.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.278][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:45.279][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:45.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:45.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:45.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.284][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:45.285][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:45.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:45.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:45.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.292][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:45.292][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:45.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.294][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.295][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:45.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:45.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.298][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:45.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.301][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:45.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:45.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:45.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.307][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.311][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:45.312][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:45.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.313][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:45.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:45.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:45.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:45.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.320][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:45.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:45.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.324][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:45.325][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:45.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:45.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:45.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:45.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:45.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:45.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:45.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:45.365][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-11-16 16:05:45.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:45.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:45.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:45.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:45.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:45.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:45.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:45.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:45.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:45.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:45.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:45.383][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-11-16 16:05:45.384][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:45.385][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-11-16 16:05:45.386][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:45.387][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:45.388][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:45.388][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:45.389][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:45.390][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:45.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:45.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:45.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:45.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:45.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:45.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:45.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:45.401][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-11-16 16:05:45.403][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:45.404][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:45.405][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-11-16 16:05:45.733][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-11-16 16:05:46.064][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:46.066][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-11-16 16:05:46.069][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-11-16 16:05:46.070][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-11-16 16:05:46.072][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:46.073][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:46.074][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:46.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:46.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:46.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:46.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:46.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:46.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:46.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:46.085][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.086][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.095][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.099][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:46.100][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:46.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:46.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:46.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.106][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:46.107][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:46.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.108][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:46.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:46.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:46.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:46.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.119][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.122][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:46.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:46.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.128][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:46.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:46.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.132][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:46.133][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.134][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.135][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:46.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.140][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.144][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:46.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:46.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:46.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:46.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.151][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:46.151][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:46.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.153][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.154][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:46.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:46.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:46.158][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:46.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.160][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:46.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:46.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:46.201][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-11-16 16:05:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:46.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:46.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:46.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:46.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:46.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:46.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:46.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:46.222][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-11-16 16:05:46.222][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:46.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-11-16 16:05:46.225][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:46.225][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:46.226][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:46.227][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:46.228][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:46.229][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:46.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:46.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:46.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:46.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:46.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:46.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:46.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:46.240][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-11-16 16:05:46.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:46.243][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:46.244][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-11-16 16:05:46.581][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-11-16 16:05:46.913][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:46.915][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-11-16 16:05:46.918][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-11-16 16:05:46.920][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-11-16 16:05:46.921][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:46.922][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:46.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:46.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:46.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:46.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:46.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:46.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:46.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:46.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:46.935][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:46.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:46.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.948][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:46.949][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:46.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.950][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:46.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:46.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.954][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:46.955][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:46.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.961][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:46.962][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:46.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.963][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:46.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:46.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.968][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.968][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:46.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:46.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:46.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.976][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.977][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:46.978][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.979][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.983][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.984][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.985][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:46.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.989][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:46.990][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:46.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.991][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:46.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:46.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:46.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:46.997][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:46.998][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:47.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:47.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:47.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.004][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.005][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:47.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:47.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:47.043][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-11-16 16:05:47.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:47.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:47.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:47.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:47.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:47.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:47.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:47.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:47.063][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-11-16 16:05:47.064][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:47.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-11-16 16:05:47.066][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:47.067][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:47.068][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:47.069][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:47.070][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:47.071][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:47.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:47.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:47.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:47.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:47.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:47.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:47.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:47.082][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-11-16 16:05:47.083][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:47.084][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:47.085][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-11-16 16:05:47.419][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-11-16 16:05:47.771][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:47.773][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-11-16 16:05:47.776][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-11-16 16:05:47.778][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-11-16 16:05:47.779][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:47.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:47.781][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:47.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:47.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:47.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:47.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:47.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:47.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:47.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:47.792][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.798][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:47.799][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:47.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.800][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:47.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:47.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.805][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:47.805][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:47.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:47.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.818][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:47.818][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:47.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:47.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:47.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:47.825][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:47.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.826][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:47.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:47.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.831][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:47.831][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:47.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.833][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.834][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:47.834][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:47.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.840][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:47.841][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:47.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.842][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:47.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.847][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:47.847][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:47.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.853][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:47.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:47.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.856][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.859][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:47.860][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:47.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.861][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:47.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:47.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:47.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:47.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:47.906][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-11-16 16:05:47.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:47.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:47.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:47.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:47.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:47.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:47.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:47.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:47.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:47.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:47.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:47.924][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-11-16 16:05:47.925][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:47.926][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-11-16 16:05:47.927][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:47.928][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:47.929][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:47.930][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:47.931][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:47.931][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:47.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:47.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:47.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:47.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:47.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:47.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:47.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:47.942][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-11-16 16:05:47.944][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:47.945][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:47.946][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-11-16 16:05:48.279][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-11-16 16:05:48.608][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:48.610][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-11-16 16:05:48.613][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-11-16 16:05:48.615][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-11-16 16:05:48.616][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:48.617][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:48.618][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:48.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:48.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:48.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:48.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:48.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:48.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:48.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:48.630][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.632][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.636][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:48.637][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:48.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:48.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:48.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.642][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:48.643][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:48.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:48.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:48.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:48.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:48.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:48.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:48.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.661][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:48.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:48.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.663][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:48.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:48.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.667][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:48.668][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:48.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.669][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.670][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:48.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:48.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:48.677][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:48.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:48.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:48.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.682][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:48.683][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:48.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.685][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:48.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:48.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.689][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:48.690][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:48.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.691][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.692][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:48.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:48.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.696][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:48.697][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:48.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:48.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:48.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:48.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:48.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:48.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:48.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:48.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:48.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:48.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:48.734][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-11-16 16:05:48.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:48.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:48.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:48.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:48.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:48.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:48.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:48.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:48.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:48.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:48.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:48.759][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-11-16 16:05:48.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:48.761][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-11-16 16:05:48.762][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:48.762][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:48.763][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:48.764][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:48.765][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:48.766][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:48.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:48.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:48.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:48.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:48.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:48.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:48.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:48.777][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-11-16 16:05:48.779][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:48.780][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:48.781][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-11-16 16:05:49.114][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-11-16 16:05:49.722][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:49.724][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-11-16 16:05:49.727][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-11-16 16:05:49.729][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-11-16 16:05:49.730][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:49.731][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:49.732][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:49.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:49.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:49.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:49.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:49.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:49.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:49.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:49.744][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.745][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.750][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:49.751][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:49.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.753][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.754][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:49.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:49.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.757][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:49.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:49.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.760][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.761][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:49.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:49.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:49.765][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:49.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:49.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:49.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:49.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:49.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.773][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:49.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:49.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.777][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:49.778][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:49.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.786][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.788][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:49.789][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.791][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:49.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:49.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:49.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.797][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:49.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:49.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.801][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:49.801][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:49.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:49.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:49.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.807][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:49.808][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:49.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:49.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:49.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:49.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:49.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.816][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.817][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:49.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:49.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:49.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:49.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:49.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:49.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:49.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:49.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:49.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:49.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:49.851][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-11-16 16:05:49.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:49.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:49.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:49.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:49.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:49.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:49.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:49.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:49.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:49.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:49.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:49.870][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-11-16 16:05:49.870][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:49.876][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-11-16 16:05:49.877][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:49.878][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:49.879][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:49.880][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:49.881][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:49.881][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:49.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:49.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:49.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:49.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:49.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:49.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:49.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:49.892][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-11-16 16:05:49.895][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:49.895][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:49.897][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-11-16 16:05:50.228][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-11-16 16:05:50.558][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:50.560][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-11-16 16:05:50.563][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-11-16 16:05:50.565][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-11-16 16:05:50.566][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:50.567][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:50.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:50.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:50.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:50.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:50.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:50.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:50.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:50.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:50.581][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.583][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.587][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:50.588][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:50.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.590][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:50.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:50.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.593][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:50.594][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:50.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.595][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.596][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:50.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:50.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.600][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:50.600][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:50.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.602][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:50.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:50.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.606][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:50.606][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:50.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.608][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:50.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:50.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:50.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:50.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.614][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.615][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:50.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.617][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.618][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:50.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:50.622][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:50.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.631][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:50.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:50.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.637][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:50.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:50.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.639][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:50.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:50.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.644][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:50.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:50.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.646][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.647][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:50.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:50.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.650][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:50.651][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:50.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.653][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.654][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:50.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:50.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:50.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:50.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:50.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:50.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:50.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:50.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:50.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:50.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:50.690][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-11-16 16:05:50.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:50.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:50.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:50.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:50.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:50.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:50.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:50.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:50.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:50.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:50.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:50.710][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-11-16 16:05:50.710][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:50.712][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-11-16 16:05:50.713][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:50.714][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:50.715][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:50.715][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:50.716][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:50.717][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:50.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:50.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:50.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:50.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:50.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:50.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:50.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:50.733][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-11-16 16:05:50.735][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:50.736][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:50.737][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-11-16 16:05:51.067][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-11-16 16:05:51.400][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:51.402][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-11-16 16:05:51.404][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-11-16 16:05:51.406][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-11-16 16:05:51.408][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:51.409][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:51.409][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:51.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:51.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:51.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:51.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:51.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:51.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:51.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:51.421][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.427][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:51.428][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:51.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.430][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:51.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:51.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.433][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:51.434][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:51.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.436][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:51.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:51.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.440][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:51.441][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:51.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.442][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.443][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:51.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:51.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.445][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:51.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:51.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.448][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.449][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:51.450][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.451][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.452][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:51.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:51.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:51.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:51.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:51.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.461][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:51.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:51.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.463][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:51.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:51.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.467][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:51.468][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:51.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.469][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.470][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:51.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:51.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.480][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:51.481][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:51.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.482][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:51.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:51.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:51.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:51.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:51.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:51.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:51.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:51.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:51.512][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-11-16 16:05:51.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:51.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:51.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:51.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:51.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:51.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:51.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:51.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:51.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:51.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:51.531][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-11-16 16:05:51.532][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:51.533][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-11-16 16:05:51.534][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:51.535][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:51.536][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:51.536][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:51.537][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:51.538][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:51.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:51.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:51.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:51.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:51.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:51.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:51.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:51.549][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-11-16 16:05:51.551][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:51.552][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:51.553][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-11-16 16:05:51.883][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-11-16 16:05:52.211][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:52.213][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-11-16 16:05:52.216][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-11-16 16:05:52.218][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-11-16 16:05:52.225][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:52.227][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:52.227][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:52.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:52.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:52.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:52.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:52.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:52.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:52.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:52.238][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.239][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.245][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:52.246][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:52.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.247][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.248][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:52.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:52.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.251][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:52.252][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:52.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.253][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:52.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:52.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:52.258][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:52.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.261][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:52.261][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:52.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.263][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.264][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:52.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:52.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.267][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:52.267][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.270][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:52.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:52.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:52.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:52.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:52.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.279][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:52.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:52.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.282][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.283][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:52.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:52.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.286][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:52.287][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:52.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.288][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:52.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:52.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:52.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:52.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.294][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:52.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:52.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:52.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:52.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:52.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:52.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:52.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:52.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:52.330][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-11-16 16:05:52.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:52.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:52.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:52.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:52.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:52.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:52.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:52.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:52.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:52.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:52.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:52.349][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-11-16 16:05:52.349][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:52.351][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-11-16 16:05:52.351][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:52.352][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:52.353][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:52.354][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:52.355][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:52.355][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:52.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:52.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:52.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:52.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:52.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:52.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:52.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:52.366][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-11-16 16:05:52.368][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:52.368][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:52.369][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-11-16 16:05:52.704][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-11-16 16:05:53.052][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:53.054][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-11-16 16:05:53.057][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-11-16 16:05:53.059][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-11-16 16:05:53.060][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:53.061][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.062][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.074][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.074][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.076][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.086][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.087][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.089][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.093][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.095][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.104][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.105][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.106][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.110][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.111][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.112][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.113][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.114][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.116][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.117][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.120][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.121][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.122][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.126][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.127][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.128][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.133][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.133][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.135][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.138][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.139][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.141][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.180][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-11-16 16:05:53.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:53.200][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-11-16 16:05:53.200][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:53.201][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-11-16 16:05:53.202][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:53.204][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-11-16 16:05:53.205][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:53.206][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.207][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.218][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.220][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.224][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.225][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.230][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.234][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.237][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.238][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.243][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.244][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.252][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.252][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.253][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.255][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.256][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.263][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.264][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.265][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.269][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.270][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.275][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.276][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.281][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.282][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.285][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.316][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-11-16 16:05:53.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:53.336][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-11-16 16:05:53.337][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:53.338][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-11-16 16:05:53.340][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:53.341][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-11-16 16:05:53.342][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:53.347][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.348][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.359][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.360][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.365][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.366][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.367][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.372][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.374][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.378][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.379][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.380][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.385][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.387][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.391][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.391][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.393][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.394][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.394][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.396][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.397][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.400][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.402][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.406][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.406][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.408][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.415][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.418][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.419][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.420][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.458][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-11-16 16:05:53.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:53.477][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-11-16 16:05:53.477][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:53.478][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-11-16 16:05:53.479][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:53.481][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-11-16 16:05:53.482][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:53.483][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.484][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.494][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.495][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.500][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.503][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.503][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.507][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.507][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.510][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.513][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.524][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.525][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.526][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.530][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.531][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.532][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.533][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.534][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.536][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.537][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.540][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.540][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.542][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.546][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.546][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.552][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.552][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.555][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.558][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.558][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.594][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-11-16 16:05:53.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:53.617][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-11-16 16:05:53.617][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:53.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-11-16 16:05:53.620][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:53.622][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-11-16 16:05:53.623][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:53.623][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.624][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.635][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.636][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.637][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.641][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.642][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.644][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.647][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.648][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.649][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.653][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.654][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.655][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.659][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.660][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.661][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.665][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.666][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.667][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.668][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.669][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.670][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.672][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.681][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.692][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.693][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.695][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.696][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.699][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.699][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.702][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.734][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-11-16 16:05:53.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:53.752][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-11-16 16:05:53.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:53.754][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-11-16 16:05:53.755][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:53.757][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-11-16 16:05:53.758][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:53.759][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.760][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.771][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.772][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.773][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.782][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.783][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.784][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.785][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.788][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.789][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.791][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.794][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.800][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.801][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.807][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.807][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.810][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.810][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.813][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.816][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.816][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.818][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.822][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.828][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.829][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.834][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.835][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.837][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.876][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-11-16 16:05:53.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:53.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:53.894][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-11-16 16:05:53.894][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:53.896][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-11-16 16:05:53.897][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:53.899][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-11-16 16:05:53.900][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:53.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:53.901][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:53.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:53.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:53.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:53.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:53.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:53.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:53.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:53.912][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.912][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.918][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.919][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.920][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:53.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:53.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.924][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:53.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:53.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.930][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.931][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:53.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:53.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.938][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:53.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.942][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.942][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:53.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.949][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.950][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.952][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:53.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:53.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.955][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.956][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:53.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.961][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.961][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.963][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.964][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:53.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:53.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.967][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.968][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.970][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:53.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:53.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.976][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.977][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:53.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:53.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:53.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:53.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:53.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:53.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:53.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.009][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-11-16 16:05:54.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.160][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:54.163][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:54.164][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:54.165][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:54.166][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-16 16:05:54.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.597][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:54.600][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:54.601][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-11-16 16:05:54.602][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:54.604][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-11-16 16:05:54.606][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:54.609][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:54.610][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-11-16 16:05:54.611][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:54.612][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-11-16 16:05:54.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:54.624][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-11-16 16:05:54.624][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:54.626][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-11-16 16:05:54.627][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:54.628][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-11-16 16:05:54.629][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:54.630][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:54.631][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:54.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.642][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.643][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.645][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.649][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:54.650][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:54.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.651][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.652][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:54.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:54.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.656][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:54.657][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:54.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:54.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:54.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.663][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:54.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:54.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:54.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:54.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.669][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.675][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:54.676][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:54.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:54.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.682][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:54.682][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.685][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:54.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.688][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.690][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.694][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:54.694][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:54.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.696][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.697][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:54.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:54.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.700][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:54.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:54.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.702][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:54.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:54.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.706][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:54.706][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:54.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.709][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:54.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:54.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.743][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-11-16 16:05:54.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:54.777][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-11-16 16:05:54.777][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:54.779][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-11-16 16:05:54.779][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:54.781][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-11-16 16:05:54.782][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:54.783][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:54.784][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:54.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.794][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.794][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.800][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:54.801][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:54.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.802][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.803][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:54.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:54.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.806][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:54.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:54.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:54.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:54.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.812][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:54.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:54.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:54.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:54.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.818][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.819][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.824][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:54.825][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:54.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.826][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.827][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:54.828][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.830][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:54.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.840][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:54.840][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:54.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.842][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:54.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:54.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.846][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:54.847][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:54.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.848][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.849][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:54.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:54.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.852][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:54.853][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:54.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.855][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:54.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:54.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:54.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:54.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:54.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.887][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-11-16 16:05:54.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.914][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:54.916][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:54.917][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:54.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:54.919][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-16 16:05:54.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:54.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:54.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:54.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:54.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:54.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:54.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:54.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:54.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:54.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:54.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:54.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.304][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:55.306][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:55.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-16 16:05:55.308][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:55.308][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-16 16:05:55.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:55.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.686][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:05:55.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:05:55.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:05:55.695][biodb::testThat]
biodb.INFO [2024-11-16 16:05:55.696][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-11-16 16:05:55.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:05:55.697][biodb::testThat]
biodb.TRACE[2024-11-16 16:05:55.700][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:05:55.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:05:55.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.702][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:05:55.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:05:55.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.705][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:05:55.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:05:55.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:55.756][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:55.758][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:55.759][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:05:55.760][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:55.761][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:05:55.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.780][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:55.782][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:05:55.783][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:05:55.784][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:05:55.785][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:05:55.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:55.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:55.825][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:05:55.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.842][private$selectFields]
biodb.TRACE[2024-11-16 16:05:55.842][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:05:55.843][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:05:55.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.847][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.851][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.854][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:05:55.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.870][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-16 16:05:55.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.885][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.886][private$selectFields]
biodb.TRACE[2024-11-16 16:05:55.887][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:05:55.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:05:55.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.891][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.892][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.894][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.895][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.896][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.897][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.898][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.899][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:05:55.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.908][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:05:55.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:55.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.924][private$selectFields]
biodb.TRACE[2024-11-16 16:05:55.925][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:05:55.925][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:05:55.926][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.932][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.933][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:05:55.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.936][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.936][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:05:55.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:55.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:55.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:55.946][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-16 16:05:55.947][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:05:55.948][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:05:55.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:55.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:55.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:55.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:55.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:55.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:55.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:55.960][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:55.962][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:55.963][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:55.965][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:05:56.296][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:05:56.626][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:56.628][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content"
biodb.TRACE[2024-11-16 16:05:56.631][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.request"
biodb.DEBUG[2024-11-16 16:05:56.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:56.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:56.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:56.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:56.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:56.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:56.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:56.642][private$loadEntries] Creating entries from ids [1]: "113227".
biodb.DEBUG[2024-11-16 16:05:56.643][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:56.644][cch$loadFileContent] Trying to load 1 files from cache: [1]: "113227".
biodb.TRACE[2024-11-16 16:05:56.645][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:56.646][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:56.646][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:56.647][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:56.648][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:56.649][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:56.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:56.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:56.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:56.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:56.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:56.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:56.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:56.659][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.DEBUG[2024-11-16 16:05:56.661][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:56.662][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:56.663][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.TRACE[2024-11-16 16:05:56.996][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227).
biodb.DEBUG[2024-11-16 16:05:57.358][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:57.361][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.content"
biodb.TRACE[2024-11-16 16:05:57.363][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.request"
biodb.TRACE[2024-11-16 16:05:57.365][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/113227.xml"
biodb.DEBUG[2024-11-16 16:05:57.367][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:57.367][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:57.368][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:57.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:57.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:57.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:57.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:57.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:57.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:57.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:57.379][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.380][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.381][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.385][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:57.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:57.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.387][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.388][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:57.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:57.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.391][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:57.392][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:57.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.393][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.394][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:57.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:57.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:57.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:57.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.399][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:57.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:57.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:57.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:57.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:57.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:57.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.417][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:57.418][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:57.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.420][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:57.421][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.422][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.423][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:57.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.426][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:57.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:57.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.428][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:57.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:57.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.431][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:57.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:57.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.433][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:57.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:57.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.437][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:57.438][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:57.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.439][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:57.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:57.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.443][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:57.443][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:57.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.445][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:57.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:57.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:57.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:57.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:57.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:57.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:57.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:57.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:57.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:57.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:57.475][self$createEntryFromContent] Accession numbers: 113227.
biodb.TRACE[2024-11-16 16:05:57.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:57.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:57.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:57.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:57.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:57.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:57.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:57.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:57.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:57.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:57.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:57.493][private$loadEntries] Creating entries from ids [1]: "169712".
biodb.DEBUG[2024-11-16 16:05:57.494][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:57.495][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169712".
biodb.TRACE[2024-11-16 16:05:57.496][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:57.497][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:57.498][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:57.499][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:57.499][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:57.500][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:57.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:57.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:57.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:57.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:57.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:57.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:57.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:57.510][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.DEBUG[2024-11-16 16:05:57.512][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:57.513][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:57.514][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.TRACE[2024-11-16 16:05:57.844][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712).
biodb.DEBUG[2024-11-16 16:05:58.175][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:58.177][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.content"
biodb.TRACE[2024-11-16 16:05:58.180][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.request"
biodb.TRACE[2024-11-16 16:05:58.182][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169712.xml"
biodb.DEBUG[2024-11-16 16:05:58.183][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:58.184][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:58.185][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:58.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:58.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:58.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:58.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:58.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:58.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:58.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:58.196][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.198][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.203][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:58.203][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:58.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.205][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:58.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:58.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.209][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:58.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:58.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.211][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:58.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:58.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.215][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:58.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:58.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.217][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:58.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:58.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.221][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:58.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:58.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:58.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:58.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.227][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:58.228][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:58.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.229][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.230][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:58.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.233][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:58.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:58.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:58.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.238][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:58.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:58.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.242][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:58.243][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:58.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:58.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:58.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.248][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:58.249][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:58.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:58.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:58.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.254][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:58.255][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:58.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.257][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:58.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:58.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:58.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:58.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:58.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:58.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:58.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:58.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:58.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:58.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:58.289][self$createEntryFromContent] Accession numbers: 169712.
biodb.TRACE[2024-11-16 16:05:58.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:58.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:58.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:58.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:58.299][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:05:58.302][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:58.302][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:58.304][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:05:58.638][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:05:58.973][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:58.975][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content"
biodb.TRACE[2024-11-16 16:05:58.978][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.request"
biodb.DEBUG[2024-11-16 16:05:58.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:58.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:58.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:58.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:58.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:58.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:58.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:58.988][private$loadEntries] Creating entries from ids [1]: "4781".
biodb.DEBUG[2024-11-16 16:05:58.998][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:58.999][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4781".
biodb.TRACE[2024-11-16 16:05:59.000][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:59.000][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:59.001][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:59.002][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:59.003][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:59.003][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:59.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:59.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:59.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:59.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:59.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:59.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:59.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:59.013][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.DEBUG[2024-11-16 16:05:59.015][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:59.016][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:59.017][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.TRACE[2024-11-16 16:05:59.348][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781).
biodb.DEBUG[2024-11-16 16:05:59.758][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:05:59.760][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.content"
biodb.TRACE[2024-11-16 16:05:59.763][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.request"
biodb.TRACE[2024-11-16 16:05:59.764][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4781.xml"
biodb.DEBUG[2024-11-16 16:05:59.766][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:05:59.766][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:05:59.767][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:05:59.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:59.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:59.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:59.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:59.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:59.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:59.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:05:59.779][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.785][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:59.786][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:59.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.788][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:05:59.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:05:59.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.792][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:59.792][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:59.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:05:59.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:05:59.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.798][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:59.799][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:59.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.800][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:05:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:05:59.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.804][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:59.805][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:59.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.806][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:05:59.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:05:59.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.810][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:59.810][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:59.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.813][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:59.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:05:59.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.816][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:59.816][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.818][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.819][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:05:59.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.821][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:59.822][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:59.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:59.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:05:59.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.828][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:59.829][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:59.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:05:59.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:05:59.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.834][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:59.835][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:59.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.837][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:05:59.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:05:59.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.840][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:59.841][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:59.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:05:59.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:05:59.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:59.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:59.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:59.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:59.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:05:59.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:05:59.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:05:59.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:05:59.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:59.877][self$createEntryFromContent] Accession numbers: 4781.
biodb.TRACE[2024-11-16 16:05:59.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:05:59.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:05:59.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:05:59.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:05:59.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:59.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:59.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:59.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:59.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:59.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:59.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:59.896][private$loadEntries] Creating entries from ids [1]: "16587".
biodb.DEBUG[2024-11-16 16:05:59.897][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:05:59.898][cch$loadFileContent] Trying to load 1 files from cache: [1]: "16587".
biodb.TRACE[2024-11-16 16:05:59.899][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:05:59.899][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:05:59.900][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:05:59.901][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:05:59.902][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:05:59.903][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:05:59.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:05:59.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:05:59.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:05:59.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:05:59.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:05:59.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:05:59.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:05:59.913][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.DEBUG[2024-11-16 16:05:59.916][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:05:59.916][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:05:59.917][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.TRACE[2024-11-16 16:06:00.252][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587).
biodb.DEBUG[2024-11-16 16:06:00.594][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:00.595][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.content"
biodb.TRACE[2024-11-16 16:06:00.598][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.request"
biodb.TRACE[2024-11-16 16:06:00.600][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/16587.xml"
biodb.DEBUG[2024-11-16 16:06:00.601][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:00.602][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:00.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:00.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:00.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:00.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:00.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:00.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:00.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:00.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:00.614][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.615][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.616][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.620][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:00.620][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:00.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.622][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:00.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:00.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.626][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:00.626][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:00.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:00.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:00.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.632][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:00.632][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:00.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.634][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:00.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:00.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:00.638][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:00.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:00.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:00.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.644][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:00.644][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:00.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.646][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.647][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.650][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:00.650][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.653][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:00.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:00.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:00.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:00.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:00.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.661][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:00.662][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:00.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.664][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:00.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:00.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.667][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:00.668][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:00.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.670][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:00.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.682][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:00.683][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:00.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:00.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:00.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:00.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:00.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:00.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:00.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:00.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:00.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:00.716][self$createEntryFromContent] Accession numbers: 16587.
biodb.TRACE[2024-11-16 16:06:00.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:00.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:00.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:00.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:00.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:00.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:00.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:00.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:00.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:00.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:00.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:00.733][private$loadEntries] Creating entries from ids [1]: "19804".
biodb.DEBUG[2024-11-16 16:06:00.734][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:00.735][cch$loadFileContent] Trying to load 1 files from cache: [1]: "19804".
biodb.TRACE[2024-11-16 16:06:00.736][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:00.737][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:00.738][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:00.738][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:00.739][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:00.740][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:00.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:00.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:00.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:00.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:00.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:00.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:00.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:00.750][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.DEBUG[2024-11-16 16:06:00.752][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:00.753][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:00.754][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.TRACE[2024-11-16 16:06:01.087][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804).
biodb.DEBUG[2024-11-16 16:06:01.418][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:01.420][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.content"
biodb.TRACE[2024-11-16 16:06:01.422][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.request"
biodb.TRACE[2024-11-16 16:06:01.424][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19804.xml"
biodb.DEBUG[2024-11-16 16:06:01.426][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:01.427][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:01.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:01.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:01.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:01.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:01.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:01.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:01.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:01.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:01.438][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.440][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.443][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:01.444][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:01.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.446][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.447][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:01.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:01.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.450][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:01.450][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:01.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.452][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.453][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:01.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:01.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.456][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:01.457][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:01.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.458][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:01.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:01.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.462][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:01.463][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:01.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:01.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:01.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.468][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:01.469][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:01.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.471][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.472][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:01.472][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.474][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.475][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:01.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.478][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:01.479][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:01.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.480][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:01.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:01.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.484][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:01.485][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:01.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:01.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:01.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.491][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:01.491][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:01.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.494][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:01.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:01.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.497][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:01.498][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:01.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.500][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:01.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:01.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:01.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:01.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:01.533][self$createEntryFromContent] Accession numbers: 19804.
biodb.TRACE[2024-11-16 16:06:01.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:01.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:01.558][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:01.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:01.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:01.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:01.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:01.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:01.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:01.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:01.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.597][private$selectFields]
biodb.TRACE[2024-11-16 16:06:01.598][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:01.599][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:01.599][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.602][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.603][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.605][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.606][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.607][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.609][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.610][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:01.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.619][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:01.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:01.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:01.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:01.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:01.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:01.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:01.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:01.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.634][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.635][private$selectFields]
biodb.TRACE[2024-11-16 16:06:01.636][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:01.636][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:01.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.638][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.639][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.644][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.647][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:01.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.657][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:06:01.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:01.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:01.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:01.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:01.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:01.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:01.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:01.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.673][private$selectFields]
biodb.TRACE[2024-11-16 16:06:01.674][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:01.675][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:01.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.683][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:01.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.684][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.686][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.686][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:01.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:01.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:01.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:01.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:06:01.697][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:01.698][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:01.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:01.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:01.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:01.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:01.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:01.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:01.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:01.709][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:01.711][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:01.712][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:01.713][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:02.046][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:02.378][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:02.380][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content"
biodb.TRACE[2024-11-16 16:06:02.383][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.request"
biodb.DEBUG[2024-11-16 16:06:02.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:02.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:02.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:02.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:02.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:02.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:02.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:02.394][private$loadEntries] Creating entries from ids [1]: "159630".
biodb.DEBUG[2024-11-16 16:06:02.395][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:02.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "159630".
biodb.TRACE[2024-11-16 16:06:02.397][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:02.398][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:02.399][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:02.399][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:02.400][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:02.401][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:02.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:02.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:02.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:02.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:02.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:02.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:02.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:02.412][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.DEBUG[2024-11-16 16:06:02.414][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:02.415][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:02.416][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.TRACE[2024-11-16 16:06:02.746][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630).
biodb.DEBUG[2024-11-16 16:06:03.091][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:03.093][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.content"
biodb.TRACE[2024-11-16 16:06:03.095][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.request"
biodb.TRACE[2024-11-16 16:06:03.097][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/159630.xml"
biodb.DEBUG[2024-11-16 16:06:03.098][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:03.099][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:03.100][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:03.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:03.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:03.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:03.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:03.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:03.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:03.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:03.110][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.111][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.112][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.117][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:03.118][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:03.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.120][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:03.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:03.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.123][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:03.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:03.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.125][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.126][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:03.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:03.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.129][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:03.130][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:03.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.131][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:03.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:03.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.135][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.137][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.141][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:03.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:03.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.144][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:03.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.146][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.147][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:03.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.151][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.155][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:03.156][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:03.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.157][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:03.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:03.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.161][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:03.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:03.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.164][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.165][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:03.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:03.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:03.169][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:03.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.171][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:03.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:03.210][self$createEntryFromContent] Accession numbers: 159630.
biodb.TRACE[2024-11-16 16:06:03.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:03.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:03.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:03.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:03.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:03.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:03.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:03.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:03.227][private$loadEntries] Creating entries from ids [1]: "160202".
biodb.DEBUG[2024-11-16 16:06:03.228][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:03.229][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160202".
biodb.TRACE[2024-11-16 16:06:03.230][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:03.231][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:03.232][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:03.232][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:03.233][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:03.234][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:03.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:03.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:03.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:03.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:03.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:03.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:03.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:03.244][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.DEBUG[2024-11-16 16:06:03.246][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:03.247][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:03.248][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.TRACE[2024-11-16 16:06:03.578][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202).
biodb.DEBUG[2024-11-16 16:06:03.915][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:03.917][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.content"
biodb.TRACE[2024-11-16 16:06:03.919][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.request"
biodb.TRACE[2024-11-16 16:06:03.921][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160202.xml"
biodb.DEBUG[2024-11-16 16:06:03.922][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:03.923][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:03.924][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:03.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:03.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:03.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:03.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:03.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:03.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:03.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:03.935][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:03.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:03.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.940][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:03.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:03.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:03.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:03.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.947][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:03.947][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:03.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.949][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.950][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:03.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:03.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:03.953][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:03.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.955][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:03.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:03.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.959][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.961][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:03.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:03.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:03.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.967][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:03.968][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.970][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:03.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:03.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.974][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.975][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:03.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.979][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:03.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:03.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.981][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:03.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:03.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.985][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:03.986][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:03.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.987][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.988][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:03.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:03.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.991][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:03.992][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:03.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.993][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:03.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:03.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:03.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:03.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:04.025][self$createEntryFromContent] Accession numbers: 160202.
biodb.TRACE[2024-11-16 16:06:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:04.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:04.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:04.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:04.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:04.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:04.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:04.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:04.043][private$loadEntries] Creating entries from ids [1]: "160393".
biodb.DEBUG[2024-11-16 16:06:04.044][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:04.045][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160393".
biodb.TRACE[2024-11-16 16:06:04.046][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:04.047][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:04.048][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:04.048][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:04.049][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:04.050][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:04.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:04.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:04.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:04.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:04.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:04.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:04.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:04.060][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.DEBUG[2024-11-16 16:06:04.062][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:04.062][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:04.063][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.TRACE[2024-11-16 16:06:04.394][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393).
biodb.DEBUG[2024-11-16 16:06:04.727][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:04.729][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.content"
biodb.TRACE[2024-11-16 16:06:04.732][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.request"
biodb.TRACE[2024-11-16 16:06:04.734][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160393.xml"
biodb.DEBUG[2024-11-16 16:06:04.735][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:04.736][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:04.736][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:04.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:04.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:04.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:04.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:04.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:04.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:04.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:04.748][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.749][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.750][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.754][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:04.755][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:04.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.756][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:04.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:04.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.760][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:04.761][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:04.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.762][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:04.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:04.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:04.767][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:04.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.768][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:04.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:04.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.781][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:04.782][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:04.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:04.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:04.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.787][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:04.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:04.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.789][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.790][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:04.791][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.792][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.793][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:04.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.796][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:04.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:04.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:04.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:04.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.801][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:04.802][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:04.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:04.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:04.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.807][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:04.808][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:04.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:04.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:04.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.812][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:04.813][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:04.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:04.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:04.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:04.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:04.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:04.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:04.845][self$createEntryFromContent] Accession numbers: 160393.
biodb.TRACE[2024-11-16 16:06:04.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:04.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:04.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:04.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:04.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:04.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:04.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:04.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:04.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:04.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:04.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:04.863][private$loadEntries] Creating entries from ids [1]: "160991".
biodb.DEBUG[2024-11-16 16:06:04.864][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:04.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160991".
biodb.TRACE[2024-11-16 16:06:04.866][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:04.867][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:04.867][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:04.868][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:04.869][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:04.869][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:04.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:04.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:04.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:04.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:04.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:04.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:04.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:04.880][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.DEBUG[2024-11-16 16:06:04.881][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:04.882][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:04.883][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.TRACE[2024-11-16 16:06:05.217][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991).
biodb.DEBUG[2024-11-16 16:06:05.548][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:05.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.content"
biodb.TRACE[2024-11-16 16:06:05.553][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.request"
biodb.TRACE[2024-11-16 16:06:05.555][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160991.xml"
biodb.DEBUG[2024-11-16 16:06:05.556][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:05.557][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:05.558][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:05.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:05.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:05.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:05.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:05.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:05.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:05.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:05.569][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.570][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.571][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.575][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:05.576][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:05.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.577][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.578][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:05.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:05.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.582][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:05.582][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:05.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.585][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:05.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.588][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:05.589][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:05.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.590][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:05.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:05.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.594][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:05.595][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:05.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.596][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:05.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:05.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.600][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:05.601][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:05.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.604][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:05.605][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.606][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.607][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:05.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.610][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:05.610][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:05.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.612][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:05.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:05.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.616][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:05.617][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:05.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.618][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:05.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:05.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.622][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:05.623][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:05.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.624][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.625][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:05.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:05.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:05.629][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:05.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.631][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.632][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:05.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:05.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:05.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:05.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:05.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:05.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:05.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:05.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:05.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:05.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:05.664][self$createEntryFromContent] Accession numbers: 160991.
biodb.TRACE[2024-11-16 16:06:05.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:05.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:05.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:05.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:05.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:05.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:05.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:05.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:05.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:05.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:05.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:05.682][private$loadEntries] Creating entries from ids [1]: "164975".
biodb.DEBUG[2024-11-16 16:06:05.683][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:05.684][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164975".
biodb.TRACE[2024-11-16 16:06:05.685][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:05.685][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:05.686][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:05.687][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:05.688][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:05.688][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:05.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:05.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:05.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:05.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:05.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:05.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:05.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:05.705][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.DEBUG[2024-11-16 16:06:05.706][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:05.707][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:05.708][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.TRACE[2024-11-16 16:06:06.056][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975).
biodb.DEBUG[2024-11-16 16:06:06.389][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:06.391][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.content"
biodb.TRACE[2024-11-16 16:06:06.393][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.request"
biodb.TRACE[2024-11-16 16:06:06.395][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164975.xml"
biodb.DEBUG[2024-11-16 16:06:06.397][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:06.397][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:06.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:06.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:06.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:06.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:06.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:06.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:06.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:06.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:06.409][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.409][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.415][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:06.416][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:06.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.418][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:06.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:06.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.421][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:06.422][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:06.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.424][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:06.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:06.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:06.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:06.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.429][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:06.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:06.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.433][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:06.434][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:06.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:06.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:06.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.439][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:06.440][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:06.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.442][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:06.442][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.444][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.444][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:06.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:06.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:06.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:06.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:06.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.453][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:06.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:06.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:06.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:06.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.459][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:06.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:06.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:06.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:06.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.464][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:06.465][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:06.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.466][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.467][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:06.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:06.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:06.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:06.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:06.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:06.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:06.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:06.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:06.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:06.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:06.499][self$createEntryFromContent] Accession numbers: 164975.
biodb.TRACE[2024-11-16 16:06:06.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:06.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:06.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:06.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:06.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:06.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:06.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:06.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:06.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:06.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:06.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:06.517][private$loadEntries] Creating entries from ids [1]: "164994".
biodb.DEBUG[2024-11-16 16:06:06.518][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:06.519][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164994".
biodb.TRACE[2024-11-16 16:06:06.520][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:06.520][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:06.521][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:06.522][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:06.523][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:06.523][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:06.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:06.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:06.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:06.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:06.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:06.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:06.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:06.534][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.DEBUG[2024-11-16 16:06:06.536][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:06.537][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:06.538][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.TRACE[2024-11-16 16:06:06.869][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994).
biodb.DEBUG[2024-11-16 16:06:07.200][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:07.201][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.content"
biodb.TRACE[2024-11-16 16:06:07.204][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.request"
biodb.TRACE[2024-11-16 16:06:07.206][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164994.xml"
biodb.DEBUG[2024-11-16 16:06:07.207][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:07.208][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:07.209][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:07.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:07.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:07.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:07.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:07.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:07.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:07.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:07.220][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.220][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.222][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.226][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:07.226][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:07.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.228][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.229][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:07.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:07.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.232][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:07.232][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:07.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.234][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:07.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:07.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:07.239][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:07.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:07.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.244][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:07.245][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:07.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.246][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:07.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:07.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:07.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:07.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.252][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.253][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:07.254][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.255][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.256][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:07.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.259][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:07.260][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:07.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.261][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:07.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:07.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.266][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:07.266][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:07.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.268][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:07.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:07.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.272][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:07.272][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:07.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:07.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:07.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.277][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:07.278][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:07.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.279][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:07.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:07.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:07.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:07.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:07.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:07.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:07.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:07.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:07.321][self$createEntryFromContent] Accession numbers: 164994.
biodb.TRACE[2024-11-16 16:06:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:07.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:07.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:07.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:07.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:07.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:07.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:07.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:07.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:07.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:07.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:07.339][private$loadEntries] Creating entries from ids [1]: "169251".
biodb.DEBUG[2024-11-16 16:06:07.339][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:07.341][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169251".
biodb.TRACE[2024-11-16 16:06:07.341][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:07.342][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:07.343][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:07.344][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:07.344][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:07.345][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:07.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:07.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:07.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:07.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:07.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:07.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:07.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:07.355][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.DEBUG[2024-11-16 16:06:07.357][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:07.358][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:07.359][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.TRACE[2024-11-16 16:06:07.686][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251).
biodb.DEBUG[2024-11-16 16:06:08.015][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:08.017][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.content"
biodb.TRACE[2024-11-16 16:06:08.019][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.request"
biodb.TRACE[2024-11-16 16:06:08.021][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169251.xml"
biodb.DEBUG[2024-11-16 16:06:08.022][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:08.023][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:08.024][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:08.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:08.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:08.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:08.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:08.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:08.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:08.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:08.035][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.035][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.037][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.041][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:08.041][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:08.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.043][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.043][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:08.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.046][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:08.047][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:08.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.049][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:08.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:08.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.052][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:08.053][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:08.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.055][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:08.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:08.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.058][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.059][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.061][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:08.065][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:08.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.067][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:08.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.070][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.070][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:08.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.073][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.076][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.080][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:08.080][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:08.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.082][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.086][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:08.086][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:08.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.088][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.089][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:08.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.091][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:08.092][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:08.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.094][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:08.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:08.126][self$createEntryFromContent] Accession numbers: 169251.
biodb.TRACE[2024-11-16 16:06:08.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:08.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:08.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:08.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:08.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:08.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:08.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:08.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:08.143][private$loadEntries] Creating entries from ids [1]: "224261".
biodb.DEBUG[2024-11-16 16:06:08.144][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:08.145][cch$loadFileContent] Trying to load 1 files from cache: [1]: "224261".
biodb.TRACE[2024-11-16 16:06:08.146][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:08.147][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:08.148][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:08.149][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:08.149][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:08.150][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:08.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:08.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:08.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:08.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:08.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:08.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:08.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:08.160][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.DEBUG[2024-11-16 16:06:08.162][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:08.162][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:08.163][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.TRACE[2024-11-16 16:06:08.497][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261).
biodb.DEBUG[2024-11-16 16:06:08.832][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:08.834][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.content"
biodb.TRACE[2024-11-16 16:06:08.836][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.request"
biodb.TRACE[2024-11-16 16:06:08.838][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/224261.xml"
biodb.DEBUG[2024-11-16 16:06:08.840][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:08.841][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:08.842][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:08.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:08.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:08.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:08.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:08.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:08.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:08.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:08.852][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.853][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.858][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:08.859][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:08.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.860][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.861][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:08.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:08.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.864][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:08.865][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:08.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.866][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:08.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.870][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:08.871][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:08.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.873][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.886][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:08.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:08.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:08.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.893][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.894][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:08.895][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.896][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.897][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:08.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:08.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.900][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.900][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.902][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:08.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.905][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:08.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:08.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:08.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:08.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.911][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:08.912][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:08.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.915][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:08.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:08.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.917][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:08.918][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:08.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:08.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:08.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:08.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:08.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:08.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:09.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:09.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:09.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:09.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:09.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:09.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:09.007][self$createEntryFromContent] Accession numbers: 224261.
biodb.TRACE[2024-11-16 16:06:09.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:09.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:09.017][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:09.019][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:09.020][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:09.021][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:09.350][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:09.682][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:09.684][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content"
biodb.TRACE[2024-11-16 16:06:09.686][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.request"
biodb.DEBUG[2024-11-16 16:06:09.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:09.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:09.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:09.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:09.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:09.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:09.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:09.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:09.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:09.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:09.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:09.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:09.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:09.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:09.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:09.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:09.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:09.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:09.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:09.715][private$loadEntries] Creating entries from ids [1]: "71954".
biodb.DEBUG[2024-11-16 16:06:09.716][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:09.717][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71954".
biodb.TRACE[2024-11-16 16:06:09.718][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:09.718][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:09.719][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:09.720][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:09.721][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:09.721][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:09.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:09.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:09.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:09.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:09.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:09.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:09.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:09.732][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.DEBUG[2024-11-16 16:06:09.734][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:09.735][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:09.736][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.TRACE[2024-11-16 16:06:10.108][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954).
biodb.DEBUG[2024-11-16 16:06:10.441][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:10.443][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.content"
biodb.TRACE[2024-11-16 16:06:10.446][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.request"
biodb.TRACE[2024-11-16 16:06:10.448][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71954.xml"
biodb.DEBUG[2024-11-16 16:06:10.450][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:10.451][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:10.452][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:10.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:10.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:10.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:10.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:10.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:10.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:10.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:10.462][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.463][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.468][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:10.469][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:10.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.470][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.471][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:10.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.474][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:10.475][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:10.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.476][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:10.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:10.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.480][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:10.481][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:10.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.482][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.486][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:10.487][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:10.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:10.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:10.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.492][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:10.493][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:10.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.495][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.495][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:10.496][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:10.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.501][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:10.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:10.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:10.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:10.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.507][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:10.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:10.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:10.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:10.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.513][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:10.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:10.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.517][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:10.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:10.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.520][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:10.520][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:10.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.522][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.523][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:10.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:10.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:10.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:10.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:10.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:10.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:10.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:10.563][self$createEntryFromContent] Accession numbers: 71954.
biodb.TRACE[2024-11-16 16:06:10.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:10.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:10.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:10.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:10.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:10.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:10.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:10.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:10.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:10.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:10.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:10.581][private$loadEntries] Creating entries from ids [1]: "197612".
biodb.DEBUG[2024-11-16 16:06:10.582][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:10.583][cch$loadFileContent] Trying to load 1 files from cache: [1]: "197612".
biodb.TRACE[2024-11-16 16:06:10.584][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:10.585][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:10.586][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:10.586][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:10.587][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:10.588][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:10.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:10.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:10.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:10.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:10.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:10.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:10.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:10.598][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.DEBUG[2024-11-16 16:06:10.599][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:10.600][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:10.601][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.TRACE[2024-11-16 16:06:10.929][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612).
biodb.DEBUG[2024-11-16 16:06:11.262][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:11.264][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.content"
biodb.TRACE[2024-11-16 16:06:11.266][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.request"
biodb.TRACE[2024-11-16 16:06:11.268][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/197612.xml"
biodb.DEBUG[2024-11-16 16:06:11.269][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:11.270][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:11.271][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:11.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.281][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.281][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.286][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:11.287][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:11.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.289][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:11.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:11.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.292][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:11.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:11.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:11.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:11.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.298][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:11.299][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:11.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.301][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:11.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:11.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:11.305][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:11.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.306][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:11.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:11.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.310][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:11.311][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:11.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.312][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.313][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:11.314][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.315][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.316][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:11.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.325][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:11.326][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:11.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.328][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:11.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:11.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.332][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:11.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:11.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.334][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:11.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:11.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:11.340][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:11.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.341][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.342][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:11.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:11.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:11.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:11.375][self$createEntryFromContent] Accession numbers: 197612.
biodb.TRACE[2024-11-16 16:06:11.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:11.386][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:11.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.402][private$selectFields]
biodb.TRACE[2024-11-16 16:06:11.402][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:11.403][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:11.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.407][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.408][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.410][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.410][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.411][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.415][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:11.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.424][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:06:11.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.440][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.441][private$selectFields]
biodb.TRACE[2024-11-16 16:06:11.442][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:11.443][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:11.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.445][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.451][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.452][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.453][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.454][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.455][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:11.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.465][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-11-16 16:06:11.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.488][private$selectFields]
biodb.TRACE[2024-11-16 16:06:11.489][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:11.489][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:11.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.494][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.497][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.501][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:11.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.510][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-11-16 16:06:11.511][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:11.512][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:06:11.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:11.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:11.598][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:11.602][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:11.603][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:06:11.604][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:11.606][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:06:11.608][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:11.611][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:11.612][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:06:11.612][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:11.614][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:06:11.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:11.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:11.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:11.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:11.668][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:11.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.684][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.684][private$selectFields]
biodb.TRACE[2024-11-16 16:06:11.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:11.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:11.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.690][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.694][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.694][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.698][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:11.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:06:11.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.750][private$selectFields]
biodb.TRACE[2024-11-16 16:06:11.751][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:11.752][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:11.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.755][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.758][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.766][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.769][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.770][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:11.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.780][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:11.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:11.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.796][private$selectFields]
biodb.TRACE[2024-11-16 16:06:11.796][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:11.797][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:11.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.801][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.805][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:11.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.809][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:11.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:11.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:11.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:11.819][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:06:11.820][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:11.820][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:11.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:11.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:11.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:11.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:11.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:11.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:11.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:11.831][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:11.834][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:11.835][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:11.836][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:12.168][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:12.498][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:12.500][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content"
biodb.TRACE[2024-11-16 16:06:12.503][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.request"
biodb.DEBUG[2024-11-16 16:06:12.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:12.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:12.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:12.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:12.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:12.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:12.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:12.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:12.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:12.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:12.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:12.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:12.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:12.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:12.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:12.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:12.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:12.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:12.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:12.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:12.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:12.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:12.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:12.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:12.532][private$loadEntries] Creating entries from ids [1]: "91601".
biodb.DEBUG[2024-11-16 16:06:12.533][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:12.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "91601".
biodb.TRACE[2024-11-16 16:06:12.536][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:12.536][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:12.537][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:12.538][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:12.539][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:12.540][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:12.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:12.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:12.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:12.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:12.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:12.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:12.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:12.551][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.DEBUG[2024-11-16 16:06:12.553][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:12.554][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:12.555][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.TRACE[2024-11-16 16:06:12.891][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601).
biodb.DEBUG[2024-11-16 16:06:13.221][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:13.223][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.content"
biodb.TRACE[2024-11-16 16:06:13.225][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.request"
biodb.TRACE[2024-11-16 16:06:13.227][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91601.xml"
biodb.DEBUG[2024-11-16 16:06:13.228][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:13.229][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:13.230][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:13.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:13.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:13.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:13.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:13.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:13.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:13.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:13.241][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.242][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.248][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:13.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:13.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.251][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:13.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:13.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.254][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:13.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:13.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:13.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:13.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:13.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:13.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.262][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:13.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:13.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.266][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:13.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:13.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.268][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:13.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:13.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.272][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:13.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:13.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.275][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:13.276][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:13.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.278][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:13.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:13.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.282][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.282][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.288][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:13.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:13.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.290][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:13.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:13.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.294][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:13.294][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:13.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.296][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.297][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:13.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:13.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:13.300][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:13.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.311][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:13.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:13.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:13.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:13.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:13.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:13.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:13.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:13.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:13.341][self$createEntryFromContent] Accession numbers: 91601.
biodb.TRACE[2024-11-16 16:06:13.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:13.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:13.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:13.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:13.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:13.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:13.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:13.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:13.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:13.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:13.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:13.358][private$loadEntries] Creating entries from ids [1]: "95147".
biodb.DEBUG[2024-11-16 16:06:13.359][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:13.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "95147".
biodb.TRACE[2024-11-16 16:06:13.361][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:13.362][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:13.363][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:13.364][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:13.364][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:13.365][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:13.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:13.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:13.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:13.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:13.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:13.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:13.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:13.375][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.DEBUG[2024-11-16 16:06:13.377][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:13.378][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:13.379][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.TRACE[2024-11-16 16:06:13.720][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147).
biodb.DEBUG[2024-11-16 16:06:14.051][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:14.053][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.content"
biodb.TRACE[2024-11-16 16:06:14.056][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.request"
biodb.TRACE[2024-11-16 16:06:14.058][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/95147.xml"
biodb.DEBUG[2024-11-16 16:06:14.059][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:14.060][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:14.061][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:14.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:14.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:14.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:14.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:14.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:14.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:14.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:14.072][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.074][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.078][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:14.079][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:14.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.080][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.081][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:14.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:14.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.084][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:14.085][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:14.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.086][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:14.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:14.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:14.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:14.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.092][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:14.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:14.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.096][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:14.097][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:14.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.098][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:14.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:14.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.102][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:14.103][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:14.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.104][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.105][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:14.106][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:14.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.107][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.108][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:14.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:14.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.111][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.117][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:14.117][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:14.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:14.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:14.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.123][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:14.123][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:14.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.125][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.125][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:14.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:14.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:14.129][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:14.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.130][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.131][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:14.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:14.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:14.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:14.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:14.163][self$createEntryFromContent] Accession numbers: 95147.
biodb.TRACE[2024-11-16 16:06:14.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:14.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:14.173][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:14.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:14.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:14.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:14.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:14.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:14.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:14.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:14.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.189][private$selectFields]
biodb.TRACE[2024-11-16 16:06:14.190][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:14.191][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:14.191][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.196][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.197][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.198][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.201][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.202][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:14.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.212][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:14.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:14.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:14.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:14.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:14.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:14.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:14.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:14.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.229][private$selectFields]
biodb.TRACE[2024-11-16 16:06:14.233][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:14.236][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:14.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.241][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.243][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.244][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.245][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.246][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.247][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.248][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:14.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-11-16 16:06:14.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:14.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:14.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:14.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:14.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:14.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:14.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:14.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.273][private$selectFields]
biodb.TRACE[2024-11-16 16:06:14.274][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:14.275][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:14.275][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.276][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.277][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.278][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.280][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.283][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:14.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.286][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.287][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:14.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:14.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:14.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:14.297][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-11-16 16:06:14.298][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:14.298][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:14.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:14.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:14.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:14.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:14.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:14.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:14.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:14.309][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:14.312][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:14.312][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:14.314][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:14.645][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:14.983][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:14.985][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content"
biodb.TRACE[2024-11-16 16:06:14.987][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.request"
biodb.DEBUG[2024-11-16 16:06:14.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:14.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:14.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:14.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:14.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:14.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:14.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:14.999][private$loadEntries] Creating entries from ids [1]: "636".
biodb.DEBUG[2024-11-16 16:06:14.999][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:15.000][cch$loadFileContent] Trying to load 1 files from cache: [1]: "636".
biodb.TRACE[2024-11-16 16:06:15.001][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:15.002][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:15.003][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:15.004][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:15.004][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:15.005][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:15.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:15.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:15.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:15.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:15.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:15.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:15.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:15.016][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.DEBUG[2024-11-16 16:06:15.018][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:15.020][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:15.021][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.TRACE[2024-11-16 16:06:15.352][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636).
biodb.DEBUG[2024-11-16 16:06:15.685][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:15.687][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.content"
biodb.TRACE[2024-11-16 16:06:15.689][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.request"
biodb.TRACE[2024-11-16 16:06:15.691][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/636.xml"
biodb.DEBUG[2024-11-16 16:06:15.692][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:15.693][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:15.694][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:15.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:15.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:15.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:15.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:15.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:15.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:15.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:15.705][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.706][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.712][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:15.712][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:15.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.715][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:15.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:15.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.717][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:15.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:15.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.720][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:15.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:15.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.724][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:15.725][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:15.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:15.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:15.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.730][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:15.731][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:15.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.733][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:15.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:15.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.737][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:15.737][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:15.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.739][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.740][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:15.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:15.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.743][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:15.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:15.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.745][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.746][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:15.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:15.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.749][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.749][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.754][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:15.755][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:15.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:15.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:15.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.761][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:15.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:15.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.763][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:15.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:15.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:15.767][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:15.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.769][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.770][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:15.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:15.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:15.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:15.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:15.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:15.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:15.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:15.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:15.802][self$createEntryFromContent] Accession numbers: 636.
biodb.TRACE[2024-11-16 16:06:15.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:15.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:15.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:15.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:15.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:15.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:15.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:15.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:15.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:15.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:15.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:15.820][private$loadEntries] Creating entries from ids [1]: "64199".
biodb.DEBUG[2024-11-16 16:06:15.821][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:15.822][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64199".
biodb.TRACE[2024-11-16 16:06:15.837][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:15.838][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:15.839][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:15.840][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:15.840][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:15.841][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:15.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:15.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:15.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:15.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:15.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:15.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:15.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:15.851][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.DEBUG[2024-11-16 16:06:15.853][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:15.854][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:15.854][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.TRACE[2024-11-16 16:06:16.185][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199).
biodb.DEBUG[2024-11-16 16:06:16.517][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:16.518][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.content"
biodb.TRACE[2024-11-16 16:06:16.521][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.request"
biodb.TRACE[2024-11-16 16:06:16.523][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64199.xml"
biodb.DEBUG[2024-11-16 16:06:16.524][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:16.525][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:16.526][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:16.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:16.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:16.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:16.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:16.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:16.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:16.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:16.536][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.537][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.538][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.542][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:16.543][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:16.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.545][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.546][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:16.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:16.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.549][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:16.550][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:16.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.551][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:16.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:16.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.555][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:16.556][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:16.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.558][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:16.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:16.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:16.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:16.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.564][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.565][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:16.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:16.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.568][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:16.569][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:16.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.570][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.571][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:16.572][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:16.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.573][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.574][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:16.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:16.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.577][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.578][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.583][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:16.583][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:16.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:16.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:16.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.588][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:16.589][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:16.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.591][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:16.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:16.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:16.595][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:16.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:16.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:16.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:16.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:16.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:16.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:16.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:16.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:16.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:16.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:16.630][self$createEntryFromContent] Accession numbers: 64199.
biodb.TRACE[2024-11-16 16:06:16.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:16.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:16.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:16.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:16.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:16.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:16.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:16.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:16.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:16.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:16.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:16.650][private$loadEntries] Creating entries from ids [1]: "65648".
biodb.DEBUG[2024-11-16 16:06:16.651][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:16.652][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65648".
biodb.TRACE[2024-11-16 16:06:16.653][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:16.653][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:16.654][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:16.655][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:16.656][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:16.656][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:16.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:16.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:16.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:16.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:16.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:16.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:16.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:16.668][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.DEBUG[2024-11-16 16:06:16.670][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:16.671][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:16.672][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.TRACE[2024-11-16 16:06:17.003][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648).
biodb.DEBUG[2024-11-16 16:06:17.335][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:17.337][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.content"
biodb.TRACE[2024-11-16 16:06:17.339][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.request"
biodb.TRACE[2024-11-16 16:06:17.341][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65648.xml"
biodb.DEBUG[2024-11-16 16:06:17.342][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:17.343][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:17.344][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:17.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.355][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.356][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.357][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.361][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:17.362][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:17.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.365][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.367][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:17.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:17.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.370][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:17.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:17.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.374][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:17.375][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:17.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.376][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:17.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:17.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.380][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:17.381][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:17.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.382][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:17.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:17.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.387][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:17.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:17.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.389][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.390][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:17.391][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.392][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.393][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:17.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.399][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.403][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:17.403][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:17.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.405][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:17.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:17.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.409][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:17.410][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:17.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.412][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:17.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:17.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:17.416][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:17.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.418][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:17.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:17.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:17.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:17.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.462][self$createEntryFromContent] Accession numbers: 65648.
biodb.TRACE[2024-11-16 16:06:17.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:17.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.472][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:17.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.489][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.490][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.490][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.491][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:17.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.493][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.495][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.495][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.497][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.499][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.502][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.502][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:17.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.513][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-11-16 16:06:17.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.529][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.530][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.531][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:17.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.534][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.539][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.542][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.543][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:17.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.553][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-11-16 16:06:17.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.569][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.569][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.570][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.571][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:17.572][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.572][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.575][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.578][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.579][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.579][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.582][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.583][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:17.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.593][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-11-16 16:06:17.594][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:17.595][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:06:17.602][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:17.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:17.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.606][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:17.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:17.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.609][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:17.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:17.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:06:17.615][biodb::testThat]
biodb.INFO [2024-11-16 16:06:17.616][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-11-16 16:06:17.617][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:06:17.617][biodb::testThat]
biodb.TRACE[2024-11-16 16:06:17.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:17.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:17.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.623][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:17.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:17.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:17.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:17.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:17.676][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:17.678][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:17.679][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:06:17.680][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:17.681][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:06:17.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.705][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:17.707][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:17.708][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:06:17.709][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:17.710][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:06:17.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.747][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:17.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.763][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.764][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.765][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:17.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.768][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.773][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.776][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.776][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:17.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.786][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-16 16:06:17.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.801][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.802][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.803][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:17.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.804][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.805][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.807][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.811][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.814][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:17.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.824][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:17.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.840][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.841][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.842][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:17.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.845][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.848][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.849][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.852][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.853][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:17.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.863][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-16 16:06:17.863][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:17.864][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:17.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:17.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:17.878][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:17.879][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-11-16 16:06:17.879][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:17.881][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-11-16 16:06:17.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.919][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:17.921][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:17.922][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-11-16 16:06:17.923][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:17.924][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-11-16 16:06:17.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:17.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:17.982][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:17.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:17.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:17.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:17.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:17.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:17.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:17.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:17.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:17.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:17.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:17.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:17.997][private$selectFields]
biodb.TRACE[2024-11-16 16:06:17.998][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:17.999][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:18.000][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.000][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.001][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.002][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.005][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.007][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.009][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.010][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:18.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.019][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:18.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:18.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:18.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:18.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:18.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:18.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:18.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:18.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.035][private$selectFields]
biodb.TRACE[2024-11-16 16:06:18.036][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:18.037][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:18.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.040][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.043][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.044][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.047][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.048][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:18.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.057][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:06:18.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:18.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:18.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:18.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:18.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:18.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:18.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:18.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.073][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.074][private$selectFields]
biodb.TRACE[2024-11-16 16:06:18.075][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:18.075][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:18.076][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.077][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.079][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.082][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.082][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.083][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:18.084][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.085][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.086][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.087][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:18.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:18.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.097][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:06:18.098][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:18.098][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:18.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:18.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:18.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:18.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:18.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:18.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:18.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:18.110][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:18.112][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:18.113][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-11-16 16:06:18.114][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:18.115][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-11-16 16:06:18.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:18.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:18.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:18.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:18.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:18.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:18.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:18.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:18.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:18.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:18.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:18.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:18.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:18.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:18.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:18.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:18.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:18.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:18.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:18.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:18.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:18.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:18.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:18.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:18.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:18.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:18.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:18.171][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:18.174][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:18.174][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:18.176][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:18.514][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:19.008][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:19.010][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.content"
biodb.TRACE[2024-11-16 16:06:19.013][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.request"
biodb.DEBUG[2024-11-16 16:06:19.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:19.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:19.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:19.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:19.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:19.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:19.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:19.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:19.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:19.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:19.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:19.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:19.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:19.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:19.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:19.045][private$loadEntries] Creating entries from ids [1]: "3017".
biodb.DEBUG[2024-11-16 16:06:19.046][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:19.047][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3017".
biodb.TRACE[2024-11-16 16:06:19.048][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:19.049][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:19.050][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:19.050][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:19.051][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:19.052][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:19.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:19.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:19.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:19.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:19.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:19.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:19.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:19.070][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.DEBUG[2024-11-16 16:06:19.072][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:19.073][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:19.074][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.TRACE[2024-11-16 16:06:19.402][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017).
biodb.DEBUG[2024-11-16 16:06:19.735][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:19.737][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.content"
biodb.TRACE[2024-11-16 16:06:19.739][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.request"
biodb.TRACE[2024-11-16 16:06:19.741][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3017.xml"
biodb.DEBUG[2024-11-16 16:06:19.742][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:19.743][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:19.744][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:19.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:19.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:19.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:19.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:19.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:19.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:19.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:19.754][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.755][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.756][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.760][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:19.761][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:19.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.763][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.764][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:19.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:19.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.766][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:19.767][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:19.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.768][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:19.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:19.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.772][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:19.773][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:19.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.774][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:19.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:19.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:19.778][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:19.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.780][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:19.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:19.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.783][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:19.784][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:19.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.786][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:19.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:19.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.789][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:19.790][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.791][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.792][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:19.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:19.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:19.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.797][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:19.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:19.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.801][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:19.802][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:19.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:19.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:19.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.807][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:19.808][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:19.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:19.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:19.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:19.813][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:19.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.816][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:19.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:19.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:19.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:19.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:19.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:19.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:19.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:19.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:19.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:19.848][self$createEntryFromContent] Accession numbers: 3017.
biodb.TRACE[2024-11-16 16:06:19.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:19.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:19.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:19.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:19.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:19.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:19.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:19.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:19.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:19.867][private$loadEntries] Creating entries from ids [1]: "3510".
biodb.DEBUG[2024-11-16 16:06:19.868][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:19.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3510".
biodb.TRACE[2024-11-16 16:06:19.870][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:19.870][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:19.871][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:19.872][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:19.873][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:19.873][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:19.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:19.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:19.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:19.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:19.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:19.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:19.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:19.884][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.DEBUG[2024-11-16 16:06:19.886][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:19.887][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:19.888][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.TRACE[2024-11-16 16:06:20.235][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510).
biodb.DEBUG[2024-11-16 16:06:20.566][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:20.568][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.content"
biodb.TRACE[2024-11-16 16:06:20.570][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.request"
biodb.TRACE[2024-11-16 16:06:20.572][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3510.xml"
biodb.DEBUG[2024-11-16 16:06:20.573][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:20.574][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:20.575][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:20.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:20.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:20.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:20.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:20.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:20.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:20.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:20.585][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.586][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.591][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:20.592][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:20.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:20.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:20.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.598][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:20.598][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:20.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.601][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:20.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:20.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.604][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:20.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:20.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.606][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:20.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:20.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:20.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.612][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:20.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:20.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.615][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:20.616][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:20.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.617][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.618][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:20.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:20.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.621][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:20.622][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.623][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.624][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:20.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:20.628][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:20.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.629][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.633][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:20.634][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:20.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.635][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:20.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:20.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.639][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:20.640][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:20.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.641][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.642][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:20.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:20.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.645][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:20.646][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:20.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:20.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:20.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:20.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:20.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:20.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:20.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:20.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:20.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:20.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:20.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:20.689][self$createEntryFromContent] Accession numbers: 3510.
biodb.TRACE[2024-11-16 16:06:20.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:20.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:20.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:20.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:20.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:20.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:20.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:20.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:20.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:20.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:20.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:20.707][private$loadEntries] Creating entries from ids [1]: "7554".
biodb.DEBUG[2024-11-16 16:06:20.707][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:20.708][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7554".
biodb.TRACE[2024-11-16 16:06:20.709][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:20.710][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:20.711][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:20.712][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:20.712][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:20.713][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:20.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:20.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:20.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:20.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:20.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:20.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:20.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:20.723][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.DEBUG[2024-11-16 16:06:20.725][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:20.725][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:20.726][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.TRACE[2024-11-16 16:06:21.059][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554).
biodb.DEBUG[2024-11-16 16:06:21.389][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:21.390][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.content"
biodb.TRACE[2024-11-16 16:06:21.393][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.request"
biodb.TRACE[2024-11-16 16:06:21.395][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7554.xml"
biodb.DEBUG[2024-11-16 16:06:21.396][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:21.397][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:21.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:21.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.410][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.412][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.416][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:21.417][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:21.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.420][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:21.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:21.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.423][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:21.424][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:21.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.425][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.426][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:21.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:21.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.429][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:21.430][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:21.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.432][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:21.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:21.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.436][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:21.437][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:21.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.438][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:21.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:21.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:21.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:21.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.444][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.445][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:21.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:21.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.448][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:21.449][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:21.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.461][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:21.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:21.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:21.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.467][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:21.468][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:21.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.470][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:21.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:21.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.474][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:21.475][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:21.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.476][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.477][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:21.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:21.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:21.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:21.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:21.510][self$createEntryFromContent] Accession numbers: 7554.
biodb.TRACE[2024-11-16 16:06:21.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:21.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:21.520][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:21.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.536][private$selectFields]
biodb.TRACE[2024-11-16 16:06:21.537][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:21.538][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:21.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.544][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.545][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.546][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.549][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:21.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.559][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:06:21.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.575][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.576][private$selectFields]
biodb.TRACE[2024-11-16 16:06:21.577][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:21.578][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:21.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.592][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.593][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.593][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.595][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.596][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:21.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.605][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3017].
biodb.DEBUG[2024-11-16 16:06:21.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.620][private$selectFields]
biodb.TRACE[2024-11-16 16:06:21.621][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:21.622][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:21.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.624][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.625][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.626][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.629][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.629][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.630][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.631][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.632][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.633][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:21.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.642][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7554].
biodb.DEBUG[2024-11-16 16:06:21.643][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:21.643][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:06:21.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:21.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:21.696][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:21.699][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:21.700][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:06:21.701][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:21.702][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:06:21.704][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:21.706][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:21.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:06:21.708][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:21.709][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:06:21.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:21.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:21.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:21.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:21.765][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:21.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.783][private$selectFields]
biodb.TRACE[2024-11-16 16:06:21.784][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:21.784][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:21.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.789][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.792][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.794][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.797][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.798][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:21.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:06:21.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.824][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.824][private$selectFields]
biodb.TRACE[2024-11-16 16:06:21.825][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:21.826][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:21.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.833][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.833][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.837][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:21.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.851][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:21.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:21.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.867][private$selectFields]
biodb.TRACE[2024-11-16 16:06:21.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:21.869][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:21.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.872][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.875][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.877][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:21.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.880][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:21.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:21.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:21.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:21.890][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:06:21.891][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:21.892][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:21.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:21.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:21.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:21.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:21.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:21.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:21.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:21.903][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:21.906][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:21.906][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:21.908][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:22.239][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:22.589][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:22.591][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.content"
biodb.TRACE[2024-11-16 16:06:22.594][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.request"
biodb.DEBUG[2024-11-16 16:06:22.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:22.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:22.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:22.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:22.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:22.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:22.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:22.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:22.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:22.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:22.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:22.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:22.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:22.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:22.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:22.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:22.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:22.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:22.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:22.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:22.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:22.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:22.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:22.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:22.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:22.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:22.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:22.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:22.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:22.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:22.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:22.639][private$loadEntries] Creating entries from ids [1]: "27495".
biodb.DEBUG[2024-11-16 16:06:22.640][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:22.641][cch$loadFileContent] Trying to load 1 files from cache: [1]: "27495".
biodb.TRACE[2024-11-16 16:06:22.642][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:22.643][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:22.644][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:22.644][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:22.645][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:22.646][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:22.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:22.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:22.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:22.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:22.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:22.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:22.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:22.657][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.DEBUG[2024-11-16 16:06:22.659][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:22.659][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:22.660][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.TRACE[2024-11-16 16:06:22.995][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495).
biodb.DEBUG[2024-11-16 16:06:23.328][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:23.330][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.content"
biodb.TRACE[2024-11-16 16:06:23.332][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.request"
biodb.TRACE[2024-11-16 16:06:23.334][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/27495.xml"
biodb.DEBUG[2024-11-16 16:06:23.335][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:23.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:23.337][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:23.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.347][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.348][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.350][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.353][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:23.354][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:23.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.356][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.356][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:23.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:23.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.359][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:23.360][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:23.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.362][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:23.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:23.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.366][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:23.367][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:23.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.368][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:23.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:23.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.372][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:23.373][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:23.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.374][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:23.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:23.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.378][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:23.379][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:23.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.381][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.381][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:23.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:23.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.385][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:23.385][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:23.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.387][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.388][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:23.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:23.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.391][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.392][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.394][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.398][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:23.399][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:23.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.400][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.401][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:23.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:23.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.405][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:23.406][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:23.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.407][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.408][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:23.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:23.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.411][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:23.412][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:23.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:23.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:23.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:23.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:23.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:23.447][self$createEntryFromContent] Accession numbers: 27495.
biodb.TRACE[2024-11-16 16:06:23.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:23.466][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:23.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.482][private$selectFields]
biodb.TRACE[2024-11-16 16:06:23.483][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:23.483][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:23.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.489][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.491][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.495][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:23.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.505][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:06:23.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.521][private$selectFields]
biodb.TRACE[2024-11-16 16:06:23.522][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:23.523][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:23.524][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.524][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.525][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.527][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.529][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.531][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.534][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.534][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:23.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.545][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:06:23.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.561][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.561][private$selectFields]
biodb.TRACE[2024-11-16 16:06:23.562][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:23.563][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:23.563][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.565][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.567][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.569][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.571][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:23.572][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.574][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.575][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:23.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:23.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.587][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [27495].
biodb.DEBUG[2024-11-16 16:06:23.588][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:23.588][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:23.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:23.601][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:23.603][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:23.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-11-16 16:06:23.605][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:23.607][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-11-16 16:06:23.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:23.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:23.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:23.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:23.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:23.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:23.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:23.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:23.671][private$loadEntries] Creating entries from ids [1]: "65675".
biodb.DEBUG[2024-11-16 16:06:23.672][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:23.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65675".
biodb.TRACE[2024-11-16 16:06:23.674][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:23.675][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:23.675][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:23.676][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:23.677][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:23.678][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:23.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:23.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:23.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:23.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:23.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:23.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:23.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:23.689][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.DEBUG[2024-11-16 16:06:23.691][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:23.692][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:23.693][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.TRACE[2024-11-16 16:06:24.027][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675).
biodb.DEBUG[2024-11-16 16:06:24.361][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:24.363][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.content"
biodb.TRACE[2024-11-16 16:06:24.366][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.request"
biodb.TRACE[2024-11-16 16:06:24.367][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65675.xml"
biodb.DEBUG[2024-11-16 16:06:24.369][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:24.370][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:24.370][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:24.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:24.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:24.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:24.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:24.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:24.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:24.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:24.381][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.382][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.383][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.387][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:24.388][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:24.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.390][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.390][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:24.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:24.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.393][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:24.394][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:24.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.396][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.397][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:24.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:24.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.407][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:24.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:24.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.409][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:24.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:24.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:24.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:24.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:24.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:24.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:24.419][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:24.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.420][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.421][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:24.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:24.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.424][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:24.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:24.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.427][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.427][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.429][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.432][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:24.433][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:24.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:24.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:24.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.439][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:24.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:24.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.442][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:24.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:24.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.444][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:24.445][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:24.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.447][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:24.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:24.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:24.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:24.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:24.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:24.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:24.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:24.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:24.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:24.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:24.479][self$createEntryFromContent] Accession numbers: 65675.
biodb.TRACE[2024-11-16 16:06:24.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:24.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:24.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:24.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:24.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:24.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:24.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:24.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:24.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:24.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:24.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:24.497][private$loadEntries] Creating entries from ids [1]: "66318".
biodb.DEBUG[2024-11-16 16:06:24.498][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:24.499][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66318".
biodb.TRACE[2024-11-16 16:06:24.500][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:24.501][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:24.502][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:24.503][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:24.504][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:24.504][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:24.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:24.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:24.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:24.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:24.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:24.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:24.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:24.515][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.DEBUG[2024-11-16 16:06:24.517][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:24.518][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:24.519][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.TRACE[2024-11-16 16:06:24.849][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318).
biodb.DEBUG[2024-11-16 16:06:25.189][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:25.191][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.content"
biodb.TRACE[2024-11-16 16:06:25.193][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.request"
biodb.TRACE[2024-11-16 16:06:25.195][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66318.xml"
biodb.DEBUG[2024-11-16 16:06:25.197][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:25.197][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:25.198][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:25.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:25.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:25.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:25.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:25.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:25.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:25.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:25.209][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.210][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.211][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.215][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:25.216][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:25.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.217][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.218][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:25.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:25.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.221][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:25.222][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:25.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.224][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:25.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:25.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.227][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:25.227][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:25.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.229][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:25.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.233][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:25.233][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:25.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.235][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:25.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:25.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.238][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:25.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:25.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.241][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.242][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:25.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:25.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.245][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:25.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:25.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.247][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.248][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.253][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:25.254][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:25.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:25.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:25.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.260][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:25.261][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:25.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.262][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:25.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:25.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.266][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:25.267][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:25.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.268][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:25.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:25.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:25.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:25.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:25.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:25.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:25.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:25.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:25.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:25.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:25.301][self$createEntryFromContent] Accession numbers: 66318.
biodb.TRACE[2024-11-16 16:06:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:25.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:25.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:25.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:25.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:25.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:25.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:25.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:25.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:25.319][private$loadEntries] Creating entries from ids [1]: "67547".
biodb.DEBUG[2024-11-16 16:06:25.320][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:25.325][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67547".
biodb.TRACE[2024-11-16 16:06:25.329][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:25.330][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:25.331][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:25.332][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:25.332][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:25.333][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:25.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:25.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:25.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:25.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:25.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:25.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:25.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:25.343][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.DEBUG[2024-11-16 16:06:25.345][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:25.346][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:25.347][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.TRACE[2024-11-16 16:06:25.679][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547).
biodb.DEBUG[2024-11-16 16:06:26.091][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:26.093][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.content"
biodb.TRACE[2024-11-16 16:06:26.096][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.request"
biodb.TRACE[2024-11-16 16:06:26.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67547.xml"
biodb.DEBUG[2024-11-16 16:06:26.099][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:26.100][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:26.101][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:26.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:26.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:26.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:26.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:26.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:26.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:26.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:26.112][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.114][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.117][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:26.118][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:26.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.121][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.124][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:26.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:26.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.126][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.126][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:26.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:26.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:26.130][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:26.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.132][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:26.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:26.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.138][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.142][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:26.143][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:26.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.144][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.145][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:26.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.148][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:26.149][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:26.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.151][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:26.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:26.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.156][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.159][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:26.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:26.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.161][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:26.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.165][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:26.166][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:26.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.167][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.168][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:26.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:26.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.171][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:26.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:26.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:26.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:26.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:26.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:26.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:26.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:26.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:26.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:26.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:26.207][self$createEntryFromContent] Accession numbers: 67547.
biodb.TRACE[2024-11-16 16:06:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:26.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:26.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:26.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:26.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:26.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:26.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:26.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:26.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:26.224][private$loadEntries] Creating entries from ids [1]: "69550".
biodb.DEBUG[2024-11-16 16:06:26.225][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:26.226][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69550".
biodb.TRACE[2024-11-16 16:06:26.227][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:26.228][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:26.229][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:26.230][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:26.231][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:26.232][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:26.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:26.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:26.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:26.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:26.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:26.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:26.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:26.242][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.DEBUG[2024-11-16 16:06:26.244][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:26.245][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:26.246][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.TRACE[2024-11-16 16:06:26.608][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550).
biodb.DEBUG[2024-11-16 16:06:26.940][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:26.941][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.content"
biodb.TRACE[2024-11-16 16:06:26.944][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.request"
biodb.TRACE[2024-11-16 16:06:26.946][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69550.xml"
biodb.DEBUG[2024-11-16 16:06:26.947][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:26.948][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:26.949][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:26.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:26.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:26.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:26.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:26.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:26.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:26.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:26.960][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.962][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:26.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:26.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.966][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:26.967][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:26.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.968][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:26.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.972][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:26.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:26.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.978][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:26.979][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:26.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:26.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.984][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.985][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:26.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.990][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:26.991][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:26.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.992][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.993][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:26.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:26.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.995][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.996][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:26.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:26.999][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.000][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.001][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.005][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:27.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:27.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.007][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:27.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:27.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.011][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:27.012][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:27.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.013][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.014][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:27.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:27.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.027][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:27.028][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:27.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.030][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:27.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:27.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:27.064][self$createEntryFromContent] Accession numbers: 69550.
biodb.TRACE[2024-11-16 16:06:27.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:27.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:27.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:27.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:27.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:27.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:27.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:27.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:27.083][private$loadEntries] Creating entries from ids [1]: "71520".
biodb.DEBUG[2024-11-16 16:06:27.084][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:27.085][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71520".
biodb.TRACE[2024-11-16 16:06:27.086][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:27.087][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:27.087][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:27.088][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:27.089][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:27.090][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:27.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:27.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:27.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:27.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:27.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:27.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:27.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:27.101][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.DEBUG[2024-11-16 16:06:27.104][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:27.105][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:27.106][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.TRACE[2024-11-16 16:06:27.441][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520).
biodb.DEBUG[2024-11-16 16:06:27.779][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:27.781][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.content"
biodb.TRACE[2024-11-16 16:06:27.784][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.request"
biodb.TRACE[2024-11-16 16:06:27.787][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71520.xml"
biodb.DEBUG[2024-11-16 16:06:27.788][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:27.789][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:27.790][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:27.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:27.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:27.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:27.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:27.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:27.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:27.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:27.802][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.803][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.809][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:27.809][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:27.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.811][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:27.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:27.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.815][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:27.816][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:27.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.818][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:27.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:27.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.822][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:27.823][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:27.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:27.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:27.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:27.830][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:27.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:27.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:27.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:27.837][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:27.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.838][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.839][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:27.840][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:27.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.842][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.843][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:27.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:27.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.847][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.853][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:27.854][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:27.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:27.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:27.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:27.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:27.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.863][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:27.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:27.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.866][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:27.867][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.869][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.870][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:27.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:27.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:27.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:27.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:27.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:27.906][self$createEntryFromContent] Accession numbers: 71520.
biodb.TRACE[2024-11-16 16:06:27.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:27.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:27.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:27.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:27.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:27.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:27.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:27.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:27.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:27.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:27.926][private$loadEntries] Creating entries from ids [1]: "77600".
biodb.DEBUG[2024-11-16 16:06:27.927][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:27.928][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77600".
biodb.TRACE[2024-11-16 16:06:27.929][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:27.930][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:27.931][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:27.932][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:27.933][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:27.933][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:27.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:27.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:27.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:27.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:27.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:27.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:27.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:27.945][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.DEBUG[2024-11-16 16:06:27.947][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:27.948][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:27.949][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.TRACE[2024-11-16 16:06:28.308][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600).
biodb.DEBUG[2024-11-16 16:06:28.643][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:28.644][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.content"
biodb.TRACE[2024-11-16 16:06:28.647][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.request"
biodb.TRACE[2024-11-16 16:06:28.649][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77600.xml"
biodb.DEBUG[2024-11-16 16:06:28.650][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:28.651][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:28.652][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:28.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:28.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:28.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:28.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:28.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:28.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:28.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:28.663][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.679][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:28.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:28.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.682][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:28.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:28.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.685][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:28.685][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:28.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.687][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:28.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:28.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.690][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:28.691][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:28.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.692][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:28.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:28.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.696][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:28.697][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:28.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:28.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:28.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.702][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:28.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:28.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.704][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.705][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:28.705][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:28.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.707][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.708][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:28.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:28.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.713][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.717][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:28.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:28.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.719][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:28.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:28.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.722][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:28.723][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:28.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.724][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:28.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:28.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.728][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:28.729][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:28.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.730][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.731][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:28.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:28.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:28.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:28.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:28.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:28.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:28.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:28.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:28.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:28.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:28.763][self$createEntryFromContent] Accession numbers: 77600.
biodb.TRACE[2024-11-16 16:06:28.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:28.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:28.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:28.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:28.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:28.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:28.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:28.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:28.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:28.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:28.781][private$loadEntries] Creating entries from ids [1]: "77601".
biodb.DEBUG[2024-11-16 16:06:28.781][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:28.783][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77601".
biodb.TRACE[2024-11-16 16:06:28.784][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:28.784][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:28.785][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:28.786][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:28.787][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:28.787][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:28.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:28.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:28.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:28.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:28.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:28.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:28.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:28.798][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.DEBUG[2024-11-16 16:06:28.800][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:28.801][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:28.802][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.TRACE[2024-11-16 16:06:29.137][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601).
biodb.DEBUG[2024-11-16 16:06:29.471][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:29.473][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.content"
biodb.TRACE[2024-11-16 16:06:29.475][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.request"
biodb.TRACE[2024-11-16 16:06:29.477][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77601.xml"
biodb.DEBUG[2024-11-16 16:06:29.478][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:29.479][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:29.480][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:29.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.490][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.491][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.492][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.496][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:29.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:29.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.499][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:29.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:29.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.502][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:29.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:29.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:29.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.508][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:29.509][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:29.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.510][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:29.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:29.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.514][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:29.515][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:29.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.516][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:29.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.520][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:29.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:29.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.522][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.523][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:29.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.525][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.526][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:29.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.529][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.530][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.531][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.535][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:29.536][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:29.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.538][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:29.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:29.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.541][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:29.542][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:29.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.543][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.544][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:29.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:29.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.547][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:29.548][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:29.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.549][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:29.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:29.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:29.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:29.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:29.582][self$createEntryFromContent] Accession numbers: 77601.
biodb.TRACE[2024-11-16 16:06:29.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:29.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:29.599][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:29.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.615][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.615][private$selectFields]
biodb.TRACE[2024-11-16 16:06:29.616][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:29.617][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:29.617][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.620][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.621][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.623][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.623][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.624][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.627][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.627][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-11-16 16:06:29.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.651][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.652][private$selectFields]
biodb.TRACE[2024-11-16 16:06:29.653][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:29.653][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:29.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.657][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.660][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.661][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.662][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.664][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.665][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:29.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.674][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77600].
biodb.DEBUG[2024-11-16 16:06:29.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.689][private$selectFields]
biodb.TRACE[2024-11-16 16:06:29.690][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:29.691][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:29.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.694][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.697][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.698][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.699][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.702][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.703][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:29.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.712][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77601].
biodb.DEBUG[2024-11-16 16:06:29.713][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:29.714][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:06:29.721][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:29.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:29.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.724][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:29.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:29.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.727][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:29.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:29.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:06:29.734][biodb::testThat]
biodb.INFO [2024-11-16 16:06:29.734][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-11-16 16:06:29.735][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:06:29.736][biodb::testThat]
biodb.TRACE[2024-11-16 16:06:29.738][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:29.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:29.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:29.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:29.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.744][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:29.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:29.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:29.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:29.795][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:29.797][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:29.798][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:06:29.799][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:29.800][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:06:29.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:29.821][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:29.823][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:29.824][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:06:29.825][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:29.826][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:06:29.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:29.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:29.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:29.867][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:29.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.882][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.883][private$selectFields]
biodb.TRACE[2024-11-16 16:06:29.884][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:29.884][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:29.885][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.890][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.892][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.895][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.896][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:29.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.905][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-16 16:06:29.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.920][private$selectFields]
biodb.TRACE[2024-11-16 16:06:29.921][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:29.922][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:29.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.925][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.928][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.929][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.933][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:29.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.943][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:29.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:29.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.958][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.958][private$selectFields]
biodb.TRACE[2024-11-16 16:06:29.959][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:29.960][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:29.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.963][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.968][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:29.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.971][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:29.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:29.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:29.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:29.981][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-16 16:06:29.982][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:29.982][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:29.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:29.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:29.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:29.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:29.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:29.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:29.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:29.993][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:29.996][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:29.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-11-16 16:06:29.997][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:29.998][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-11-16 16:06:30.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.034][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.036][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.037][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-11-16 16:06:30.038][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.039][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-11-16 16:06:30.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.091][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:30.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.112][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.113][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.113][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.121][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.124][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.125][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.134][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:30.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.149][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.150][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.151][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.152][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.153][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.157][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.158][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.159][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.159][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.160][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.161][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.162][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.171][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:06:30.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.187][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.188][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.192][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.195][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.196][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.199][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.199][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.209][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:06:30.210][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:30.210][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:30.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:30.222][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.224][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.225][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-11-16 16:06:30.226][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.227][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-11-16 16:06:30.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.371][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.373][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.374][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-11-16 16:06:30.374][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.375][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-11-16 16:06:30.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:30.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.427][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:30.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.442][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.443][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.444][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.444][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.448][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.451][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.451][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.452][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.453][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.456][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.465][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:06:30.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.481][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.482][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.483][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.483][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.484][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.486][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.489][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.491][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.494][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.504][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-11-16 16:06:30.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.519][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.520][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.520][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.521][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.523][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.524][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.527][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.528][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.529][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.529][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.530][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.532][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.532][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.542][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-11-16 16:06:30.543][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:30.543][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:06:30.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:30.608][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.610][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.611][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:06:30.612][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.613][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:06:30.616][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.622][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.623][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:06:30.624][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.625][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:06:30.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.677][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:30.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.692][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.693][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.693][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.694][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.695][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.697][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.698][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.700][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.702][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.706][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.715][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:06:30.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.731][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.732][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.732][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.733][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.736][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.738][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.740][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.743][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.743][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.754][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:30.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.770][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.770][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.771][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.774][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.777][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.778][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.779][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.782][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.792][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:06:30.793][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:30.793][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:30.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:30.805][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.807][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.808][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-11-16 16:06:30.809][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.810][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-11-16 16:06:30.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:30.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:30.863][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:30.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.884][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.885][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.886][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.889][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.890][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.892][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.893][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.896][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.896][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.906][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:30.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.921][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.921][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.922][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.923][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.930][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.931][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.932][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.934][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.934][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.944][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-11-16 16:06:30.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:30.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.959][private$selectFields]
biodb.TRACE[2024-11-16 16:06:30.960][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:30.961][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:30.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.962][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.964][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.967][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.969][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:30.969][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.970][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.972][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.972][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:30.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:30.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:30.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:30.982][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-11-16 16:06:30.983][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:30.983][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:30.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:30.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:30.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:30.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:30.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:30.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:30.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:30.994][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:30.996][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:30.997][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-11-16 16:06:30.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:30.999][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-11-16 16:06:31.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:31.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:31.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:31.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:31.053][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:31.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:31.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.069][private$selectFields]
biodb.TRACE[2024-11-16 16:06:31.070][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:31.070][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:31.071][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.072][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.074][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.077][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.077][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.078][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.081][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.082][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.091][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-11-16 16:06:31.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.107][private$selectFields]
biodb.TRACE[2024-11-16 16:06:31.108][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:31.109][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:31.110][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.112][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.116][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.117][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.120][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:31.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.135][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-11-16 16:06:31.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:31.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.152][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.153][private$selectFields]
biodb.TRACE[2024-11-16 16:06:31.153][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:31.154][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:31.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.158][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.159][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.161][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.162][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.162][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:31.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.164][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.166][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:31.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.176][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-11-16 16:06:31.177][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:31.177][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:06:31.194][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:31.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:31.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:31.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:31.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.201][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:31.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:06:31.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.206][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:31.207][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:31.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.209][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.209][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.210][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:31.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.212][ef$get] fields variable is a list.
biodb.INFO [2024-11-16 16:06:31.213][biodb::testThat]
biodb.INFO [2024-11-16 16:06:31.214][biodb::testThat] Running test function test.annotateMzValues_real_values (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2024-11-16 16:06:31.215][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:06:31.215][biodb::testThat]
biodb.TRACE[2024-11-16 16:06:31.218][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:31.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:31.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:31.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:31.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.224][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:06:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:06:31.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:31.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:31.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:31.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:31.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:31.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:31.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:31.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:31.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:31.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:31.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:31.273][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:31.276][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:31.276][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:31.278][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:31.614][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:32.107][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:32.108][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content"
biodb.TRACE[2024-11-16 16:06:32.111][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.request"
biodb.DEBUG[2024-11-16 16:06:32.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:32.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:32.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:32.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:32.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:32.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:32.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:32.124][private$loadEntries] Creating entries from ids [1]: "3014".
biodb.DEBUG[2024-11-16 16:06:32.125][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:32.126][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3014".
biodb.TRACE[2024-11-16 16:06:32.127][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:32.128][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:32.128][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:32.129][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:32.130][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:32.131][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:32.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:32.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:32.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:32.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:32.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:32.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:32.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:32.141][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.DEBUG[2024-11-16 16:06:32.143][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:32.144][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:32.145][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.TRACE[2024-11-16 16:06:32.478][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014).
biodb.DEBUG[2024-11-16 16:06:32.836][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:32.838][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.content"
biodb.TRACE[2024-11-16 16:06:32.841][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.request"
biodb.TRACE[2024-11-16 16:06:32.842][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3014.xml"
biodb.DEBUG[2024-11-16 16:06:32.844][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:32.845][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:32.846][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:32.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:32.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:32.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:32.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:32.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:32.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:32.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:32.856][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.859][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.863][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:32.863][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:32.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.865][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.866][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:32.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:32.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.869][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:32.869][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:32.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.871][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:32.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:32.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.875][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:32.876][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:32.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:32.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:32.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.881][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:32.882][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:32.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.883][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:32.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:32.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:32.888][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:32.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.889][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.890][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:32.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:32.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.893][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:32.894][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.895][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.896][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:32.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.899][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:32.900][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:32.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.901][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:32.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:32.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.905][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:32.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:32.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:32.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:32.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.922][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:32.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:32.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.924][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.924][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:32.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:32.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.927][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:32.928][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:32.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:32.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:32.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:32.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:32.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:32.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:32.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:32.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:32.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:32.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:32.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:32.961][self$createEntryFromContent] Accession numbers: 3014.
biodb.TRACE[2024-11-16 16:06:32.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:32.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:32.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:32.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:32.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:32.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:32.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:32.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:32.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:32.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:32.979][private$loadEntries] Creating entries from ids [1]: "7567".
biodb.DEBUG[2024-11-16 16:06:32.980][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:32.981][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7567".
biodb.TRACE[2024-11-16 16:06:32.982][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:32.982][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:32.983][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:32.984][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:32.985][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:32.985][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:32.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:32.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:32.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:32.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:32.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:32.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:32.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:32.995][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.DEBUG[2024-11-16 16:06:32.997][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:32.998][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:32.999][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.TRACE[2024-11-16 16:06:33.333][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567).
biodb.DEBUG[2024-11-16 16:06:33.667][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:33.669][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.content"
biodb.TRACE[2024-11-16 16:06:33.672][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.request"
biodb.TRACE[2024-11-16 16:06:33.674][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7567.xml"
biodb.DEBUG[2024-11-16 16:06:33.675][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:33.676][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:33.677][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:33.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:33.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:33.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:33.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:33.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:33.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:33.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:33.688][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.690][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.695][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:33.695][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:33.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.697][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.698][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:33.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:33.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.701][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:33.702][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:33.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.703][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:33.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:33.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.707][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:33.708][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:33.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.709][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:33.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:33.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.713][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:33.714][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:33.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.715][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:33.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:33.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.719][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:33.720][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:33.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.721][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.722][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:33.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:33.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.725][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:33.727][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.728][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.729][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:33.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.732][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:33.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:33.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.734][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:33.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:33.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.738][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:33.739][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:33.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.740][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:33.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:33.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.744][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:33.745][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:33.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:33.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:33.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:33.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:33.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:33.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:33.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:33.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:33.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:33.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:33.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:33.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:33.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:33.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:33.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:33.786][self$createEntryFromContent] Accession numbers: 7567.
biodb.TRACE[2024-11-16 16:06:33.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:33.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:33.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:33.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:33.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:33.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:33.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:33.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:33.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:33.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:33.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:33.805][private$loadEntries] Creating entries from ids [1]: "8021".
biodb.DEBUG[2024-11-16 16:06:33.806][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:33.807][cch$loadFileContent] Trying to load 1 files from cache: [1]: "8021".
biodb.TRACE[2024-11-16 16:06:33.808][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:33.809][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:33.810][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:33.811][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:33.812][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:33.812][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:33.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:33.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:33.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:33.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:33.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:33.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:33.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:33.823][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.DEBUG[2024-11-16 16:06:33.825][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:33.826][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:33.827][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.TRACE[2024-11-16 16:06:34.160][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021).
biodb.DEBUG[2024-11-16 16:06:34.492][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:34.494][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.content"
biodb.TRACE[2024-11-16 16:06:34.498][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.request"
biodb.TRACE[2024-11-16 16:06:34.500][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8021.xml"
biodb.DEBUG[2024-11-16 16:06:34.521][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:34.527][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:34.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:34.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:34.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:34.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:34.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:34.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:34.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:34.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:34.539][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.545][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:34.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:34.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.548][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:34.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:34.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.551][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:34.552][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:34.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.554][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:34.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:34.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:34.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:34.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:34.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.564][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:34.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:34.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:34.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:34.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.570][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:34.570][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:34.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.573][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:34.574][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.575][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.576][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:34.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:34.580][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:34.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.581][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:34.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:34.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.585][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:34.586][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:34.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.587][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:34.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:34.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.591][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:34.592][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:34.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.593][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:34.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:34.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:34.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.599][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.600][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:34.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:34.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:34.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:34.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:34.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:34.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:34.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:34.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:34.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:34.632][self$createEntryFromContent] Accession numbers: 8021.
biodb.TRACE[2024-11-16 16:06:34.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:34.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:34.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:34.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:34.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:34.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:34.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:34.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:34.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:34.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:34.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:34.651][private$loadEntries] Creating entries from ids [1]: "30382".
biodb.DEBUG[2024-11-16 16:06:34.652][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:34.653][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30382".
biodb.TRACE[2024-11-16 16:06:34.654][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:34.655][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:34.656][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:34.656][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:34.657][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:34.658][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:34.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:34.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:34.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:34.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:34.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:34.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:34.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:34.670][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.DEBUG[2024-11-16 16:06:34.672][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:34.673][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:34.674][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.TRACE[2024-11-16 16:06:35.003][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382).
biodb.DEBUG[2024-11-16 16:06:35.346][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:35.348][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.content"
biodb.TRACE[2024-11-16 16:06:35.351][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.request"
biodb.TRACE[2024-11-16 16:06:35.353][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30382.xml"
biodb.DEBUG[2024-11-16 16:06:35.354][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:35.355][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:35.356][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:35.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:35.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:35.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:35.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:35.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:35.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:35.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:35.367][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.367][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.369][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.373][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:35.374][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:35.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.375][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.376][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:35.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:35.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.379][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:35.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:35.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.381][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.382][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:35.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.385][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:35.386][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:35.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.388][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.392][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:35.393][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:35.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.395][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:35.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:35.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.400][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:35.401][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:35.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.402][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.403][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:35.404][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.406][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.407][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:35.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:35.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.413][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.417][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:35.418][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:35.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.423][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:35.424][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:35.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.426][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.427][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:35.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:35.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.430][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:35.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:35.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.432][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:35.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:35.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:35.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:35.475][self$createEntryFromContent] Accession numbers: 30382.
biodb.TRACE[2024-11-16 16:06:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:35.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:35.485][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:35.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:35.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:35.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:35.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:35.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:35.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:35.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:35.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.502][private$selectFields]
biodb.TRACE[2024-11-16 16:06:35.502][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:35.503][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:35.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.505][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.508][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.510][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.511][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.511][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.515][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:35.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.525][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-11-16 16:06:35.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:35.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:35.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:35.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:35.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:35.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:35.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:35.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.540][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.541][private$selectFields]
biodb.TRACE[2024-11-16 16:06:35.541][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:35.542][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:35.543][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.546][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.549][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.550][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:35.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.565][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2024-11-16 16:06:35.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:35.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:35.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:35.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:35.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:35.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:35.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:35.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.581][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.581][private$selectFields]
biodb.TRACE[2024-11-16 16:06:35.582][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:35.583][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:35.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.584][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.585][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.586][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.590][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.591][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:35.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.595][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:35.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:35.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:35.605][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2024-11-16 16:06:35.605][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:35.606][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:35.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:35.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:35.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:35.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:35.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:35.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:35.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:35.618][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:35.620][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:35.621][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:35.623][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:35.956][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:36.288][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:36.290][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content"
biodb.TRACE[2024-11-16 16:06:36.293][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.request"
biodb.DEBUG[2024-11-16 16:06:36.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:36.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:36.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:36.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:36.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:36.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:36.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:36.305][private$loadEntries] Creating entries from ids [1]: "9710".
biodb.DEBUG[2024-11-16 16:06:36.306][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:36.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9710".
biodb.TRACE[2024-11-16 16:06:36.308][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:36.309][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:36.309][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:36.310][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:36.311][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:36.312][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:36.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:36.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:36.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:36.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:36.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:36.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:36.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:36.322][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.DEBUG[2024-11-16 16:06:36.324][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:36.325][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:36.326][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.TRACE[2024-11-16 16:06:36.674][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710).
biodb.DEBUG[2024-11-16 16:06:37.010][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:37.011][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.content"
biodb.TRACE[2024-11-16 16:06:37.014][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.request"
biodb.TRACE[2024-11-16 16:06:37.016][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9710.xml"
biodb.DEBUG[2024-11-16 16:06:37.017][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:37.018][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:37.019][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:37.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:37.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:37.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:37.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:37.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:37.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:37.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:37.030][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.032][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.036][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:37.036][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:37.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.038][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.039][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:37.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:37.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.042][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:37.043][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:37.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.044][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:37.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:37.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:37.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.050][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:37.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:37.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.054][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.055][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.056][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.060][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:37.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:37.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.062][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.063][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:37.064][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.065][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.066][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:37.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.069][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.071][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.084][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:37.085][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:37.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.087][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:37.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:37.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.091][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:37.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:37.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:37.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:37.097][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:37.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.099][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:37.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:37.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:37.131][self$createEntryFromContent] Accession numbers: 9710.
biodb.TRACE[2024-11-16 16:06:37.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:37.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:37.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:37.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:37.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:37.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:37.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:37.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:37.149][private$loadEntries] Creating entries from ids [1]: "65530".
biodb.DEBUG[2024-11-16 16:06:37.150][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:37.151][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65530".
biodb.TRACE[2024-11-16 16:06:37.152][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:37.153][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:37.154][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:37.155][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:37.155][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:37.156][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:37.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:37.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:37.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:37.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:37.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:37.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:37.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:37.167][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.DEBUG[2024-11-16 16:06:37.169][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:37.169][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:37.170][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.TRACE[2024-11-16 16:06:37.501][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530).
biodb.DEBUG[2024-11-16 16:06:37.834][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:37.835][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.content"
biodb.TRACE[2024-11-16 16:06:37.838][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.request"
biodb.TRACE[2024-11-16 16:06:37.840][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65530.xml"
biodb.DEBUG[2024-11-16 16:06:37.842][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:37.842][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:37.843][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:37.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:37.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:37.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:37.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:37.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:37.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:37.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:37.855][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.855][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.857][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.861][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:37.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:37.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.863][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.864][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:37.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:37.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.867][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:37.867][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:37.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.869][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:37.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:37.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:37.873][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:37.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.875][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:37.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:37.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.878][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.879][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:37.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.885][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:37.885][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:37.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.888][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:37.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.890][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.894][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.895][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:37.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.899][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:37.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:37.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.901][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:37.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.905][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:37.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:37.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.908][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.908][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:37.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:37.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.911][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:37.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:37.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.913][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.914][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:37.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:37.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:37.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:37.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:37.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:37.946][self$createEntryFromContent] Accession numbers: 65530.
biodb.TRACE[2024-11-16 16:06:37.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:37.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:37.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:37.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:37.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:37.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:37.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:37.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:37.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:37.964][private$loadEntries] Creating entries from ids [1]: "72338".
biodb.DEBUG[2024-11-16 16:06:37.965][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:37.966][cch$loadFileContent] Trying to load 1 files from cache: [1]: "72338".
biodb.TRACE[2024-11-16 16:06:37.967][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:37.968][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:37.969][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:37.969][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:37.970][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:37.971][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:37.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:37.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:37.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:37.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:37.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:37.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:37.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:37.982][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.DEBUG[2024-11-16 16:06:37.984][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:37.984][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:37.985][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.TRACE[2024-11-16 16:06:38.330][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338).
biodb.DEBUG[2024-11-16 16:06:38.694][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:38.695][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.content"
biodb.TRACE[2024-11-16 16:06:38.698][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.request"
biodb.TRACE[2024-11-16 16:06:38.704][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/72338.xml"
biodb.DEBUG[2024-11-16 16:06:38.710][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:38.711][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:38.712][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:38.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:38.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:38.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:38.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:38.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:38.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:38.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:38.723][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.723][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.725][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.729][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:38.730][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:38.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.731][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.732][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:38.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:38.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.735][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:38.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:38.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.737][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.738][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:38.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:38.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:38.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:38.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.743][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:38.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:38.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:38.748][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:38.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.749][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:38.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.753][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:38.754][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:38.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.755][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.756][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:38.756][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.758][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.759][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:38.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:38.762][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:38.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.764][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:38.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.768][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:38.769][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:38.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.770][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:38.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.774][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:38.775][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:38.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.776][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:38.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:38.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.781][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:38.781][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:38.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.784][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:38.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:38.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:38.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:38.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:38.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:38.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:38.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:38.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:38.817][self$createEntryFromContent] Accession numbers: 72338.
biodb.TRACE[2024-11-16 16:06:38.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:38.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:38.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:38.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:38.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:38.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:38.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:38.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:38.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:38.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:38.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:38.835][private$loadEntries] Creating entries from ids [1]: "77926".
biodb.DEBUG[2024-11-16 16:06:38.836][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:38.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77926".
biodb.TRACE[2024-11-16 16:06:38.838][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:38.839][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:38.840][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:38.842][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:38.843][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:38.844][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:38.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:38.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:38.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:38.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:38.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:38.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:38.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:38.856][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.DEBUG[2024-11-16 16:06:38.858][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:38.859][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:38.860][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.TRACE[2024-11-16 16:06:39.192][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926).
biodb.DEBUG[2024-11-16 16:06:39.525][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:39.527][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.content"
biodb.TRACE[2024-11-16 16:06:39.529][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.request"
biodb.TRACE[2024-11-16 16:06:39.531][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77926.xml"
biodb.DEBUG[2024-11-16 16:06:39.533][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:39.533][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:39.534][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:39.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:39.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:39.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:39.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:39.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:39.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:39.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:39.545][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.551][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:39.552][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:39.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.554][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:39.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:39.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.557][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:39.558][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:39.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:39.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:39.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.563][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:39.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:39.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.569][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:39.570][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:39.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.571][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:39.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:39.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.575][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:39.576][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:39.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.577][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.578][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:39.579][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.580][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.581][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:39.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:39.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:39.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.586][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:39.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.590][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:39.591][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:39.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.593][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:39.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:39.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.597][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:39.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:39.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.599][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:39.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.603][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:39.604][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:39.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.605][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:39.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:39.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:39.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:39.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:39.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:39.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:39.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:39.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:39.647][self$createEntryFromContent] Accession numbers: 77926.
biodb.TRACE[2024-11-16 16:06:39.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:39.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:39.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:39.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:39.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:39.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:39.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:39.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:39.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:39.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:39.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:39.665][private$loadEntries] Creating entries from ids [1]: "82369".
biodb.DEBUG[2024-11-16 16:06:39.666][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:39.667][cch$loadFileContent] Trying to load 1 files from cache: [1]: "82369".
biodb.TRACE[2024-11-16 16:06:39.668][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:39.669][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:39.669][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:39.670][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:39.671][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:39.672][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:39.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:39.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:39.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:39.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:39.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:39.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:39.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:39.682][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.DEBUG[2024-11-16 16:06:39.684][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:39.685][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:39.686][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.TRACE[2024-11-16 16:06:40.018][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369).
biodb.DEBUG[2024-11-16 16:06:40.350][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:40.351][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.content"
biodb.TRACE[2024-11-16 16:06:40.354][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.request"
biodb.TRACE[2024-11-16 16:06:40.356][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/82369.xml"
biodb.DEBUG[2024-11-16 16:06:40.357][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:40.358][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:40.359][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:40.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:40.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:40.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:40.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:40.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:40.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:40.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:40.370][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.371][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.372][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.376][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:40.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:40.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.378][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:40.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:40.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.382][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:40.383][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:40.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.384][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.385][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:40.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:40.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.388][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:40.389][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:40.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.390][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:40.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:40.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:40.395][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:40.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.397][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:40.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:40.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.401][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:40.401][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:40.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.403][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:40.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:40.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.406][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:40.407][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.409][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:40.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:40.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:40.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:40.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:40.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.418][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:40.419][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:40.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.420][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.421][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:40.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:40.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.424][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:40.425][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:40.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.426][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.427][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:40.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:40.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.430][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:40.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:40.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.432][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.433][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:40.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:40.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:40.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:40.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:40.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:40.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:40.464][self$createEntryFromContent] Accession numbers: 82369.
biodb.TRACE[2024-11-16 16:06:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:40.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:40.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:40.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:40.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:40.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:40.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:40.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:40.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:40.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:40.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:40.483][private$loadEntries] Creating entries from ids [1]: "90204".
biodb.DEBUG[2024-11-16 16:06:40.483][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:40.484][cch$loadFileContent] Trying to load 1 files from cache: [1]: "90204".
biodb.TRACE[2024-11-16 16:06:40.485][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:40.486][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:40.487][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:40.488][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:40.489][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:40.489][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:40.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:40.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:40.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:40.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:40.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:40.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:40.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:40.500][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.DEBUG[2024-11-16 16:06:40.502][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:40.502][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:40.503][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.TRACE[2024-11-16 16:06:40.835][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204).
biodb.DEBUG[2024-11-16 16:06:41.166][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:41.168][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.content"
biodb.TRACE[2024-11-16 16:06:41.170][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.request"
biodb.TRACE[2024-11-16 16:06:41.172][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/90204.xml"
biodb.DEBUG[2024-11-16 16:06:41.174][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:41.175][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:41.176][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:41.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:41.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:41.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:41.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:41.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:41.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:41.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:41.187][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.187][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.189][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.193][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:41.194][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:41.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.195][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.199][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:41.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:41.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.201][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:41.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:41.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.205][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:41.206][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:41.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.207][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:41.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:41.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:41.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:41.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.227][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:41.228][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:41.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.229][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.230][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:41.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.233][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:41.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:41.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:41.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.238][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:41.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:41.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.242][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:41.243][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:41.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:41.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:41.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.248][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:41.249][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:41.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:41.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:41.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.254][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:41.254][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:41.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:41.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:41.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:41.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:41.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:41.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:41.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:41.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:41.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:41.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:41.287][self$createEntryFromContent] Accession numbers: 90204.
biodb.TRACE[2024-11-16 16:06:41.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:41.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:41.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:41.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:41.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:41.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:41.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:41.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:41.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:41.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:41.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:41.306][private$loadEntries] Creating entries from ids [1]: "132793".
biodb.DEBUG[2024-11-16 16:06:41.306][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:41.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132793".
biodb.TRACE[2024-11-16 16:06:41.308][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:41.309][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:41.310][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:41.311][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:41.311][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:41.312][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:41.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:41.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:41.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:41.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:41.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:41.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:41.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:41.323][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.DEBUG[2024-11-16 16:06:41.325][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:41.325][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:41.327][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.TRACE[2024-11-16 16:06:41.658][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793).
biodb.DEBUG[2024-11-16 16:06:41.989][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:41.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.content"
biodb.TRACE[2024-11-16 16:06:41.994][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.request"
biodb.TRACE[2024-11-16 16:06:41.995][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132793.xml"
biodb.DEBUG[2024-11-16 16:06:41.997][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:41.998][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:41.999][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:42.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:42.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:42.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:42.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:42.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:42.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:42.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:42.009][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.010][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.011][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.015][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:42.016][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:42.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.017][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.018][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.021][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:42.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:42.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.023][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:42.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:42.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:42.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.029][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:42.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:42.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:42.033][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:42.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.035][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:42.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.039][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:42.039][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:42.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.041][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.042][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:42.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:42.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.045][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:42.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.047][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.048][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:42.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.050][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:42.051][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:42.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.053][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:42.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:42.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.056][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:42.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:42.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.059][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:42.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:42.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.063][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:42.063][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:42.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.065][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.066][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:42.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:42.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:42.069][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:42.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.071][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:42.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:42.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:42.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:42.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:42.103][self$createEntryFromContent] Accession numbers: 132793.
biodb.TRACE[2024-11-16 16:06:42.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:42.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:42.113][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:42.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:42.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:42.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:42.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:42.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:42.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:42.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:42.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.134][private$selectFields]
biodb.TRACE[2024-11-16 16:06:42.137][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:42.138][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:42.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.139][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.140][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.144][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.146][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.147][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.149][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.149][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:42.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2024-11-16 16:06:42.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:42.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:42.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:42.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:42.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:42.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:42.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.174][private$selectFields]
biodb.TRACE[2024-11-16 16:06:42.175][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:42.176][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:42.176][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.179][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.182][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.183][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.186][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.187][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:42.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.196][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2024-11-16 16:06:42.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:42.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:42.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:42.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:42.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:42.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:42.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:42.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.211][private$selectFields]
biodb.TRACE[2024-11-16 16:06:42.212][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:42.213][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:42.214][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.216][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.219][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.221][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:42.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.224][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:42.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:42.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:42.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:42.234][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2024-11-16 16:06:42.235][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:42.235][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:42.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:42.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:42.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:42.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:42.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:42.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:42.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:42.246][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:42.249][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:42.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:42.251][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:42.581][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:43.006][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:43.008][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content"
biodb.TRACE[2024-11-16 16:06:43.011][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.request"
biodb.DEBUG[2024-11-16 16:06:43.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:43.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:43.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:43.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:43.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:43.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:43.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:43.022][private$loadEntries] Creating entries from ids [1]: "131378".
biodb.DEBUG[2024-11-16 16:06:43.023][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:43.024][cch$loadFileContent] Trying to load 1 files from cache: [1]: "131378".
biodb.TRACE[2024-11-16 16:06:43.025][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:43.026][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:43.027][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:43.028][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:43.029][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:43.029][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:43.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:43.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:43.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:43.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:43.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:43.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:43.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:43.040][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.DEBUG[2024-11-16 16:06:43.042][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:43.043][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:43.044][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.TRACE[2024-11-16 16:06:43.377][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378).
biodb.DEBUG[2024-11-16 16:06:43.707][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:43.709][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.content"
biodb.TRACE[2024-11-16 16:06:43.712][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.request"
biodb.TRACE[2024-11-16 16:06:43.714][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/131378.xml"
biodb.DEBUG[2024-11-16 16:06:43.715][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:43.716][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:43.717][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:43.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:43.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:43.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:43.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:43.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:43.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:43.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:43.727][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.728][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.729][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.734][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:43.734][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:43.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.736][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.737][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:43.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:43.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.740][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:43.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:43.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.742][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:43.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:43.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:43.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:43.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.748][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:43.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:43.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.752][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:43.753][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:43.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.754][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:43.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:43.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.758][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:43.759][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:43.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.760][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.761][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:43.762][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.763][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.766][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:43.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:43.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:43.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:43.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:43.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.775][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:43.775][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:43.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.777][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:43.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:43.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.781][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:43.782][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:43.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.784][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:43.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:43.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:43.788][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:43.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.789][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.790][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:43.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:43.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:43.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:43.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:43.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:43.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:43.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:43.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:43.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:43.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:43.832][self$createEntryFromContent] Accession numbers: 131378.
biodb.TRACE[2024-11-16 16:06:43.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:43.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:43.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:43.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:43.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:43.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:43.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:43.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:43.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:43.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:43.849][private$loadEntries] Creating entries from ids [1]: "214202".
biodb.DEBUG[2024-11-16 16:06:43.850][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:43.851][cch$loadFileContent] Trying to load 1 files from cache: [1]: "214202".
biodb.TRACE[2024-11-16 16:06:43.852][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:43.853][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:43.853][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:43.854][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:43.855][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:43.855][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:43.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:43.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:43.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:43.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:43.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:43.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:43.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:43.866][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.DEBUG[2024-11-16 16:06:43.867][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:43.868][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:43.869][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.TRACE[2024-11-16 16:06:44.198][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202).
biodb.DEBUG[2024-11-16 16:06:44.532][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:44.534][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.content"
biodb.TRACE[2024-11-16 16:06:44.536][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.request"
biodb.TRACE[2024-11-16 16:06:44.538][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/214202.xml"
biodb.DEBUG[2024-11-16 16:06:44.539][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:44.540][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:44.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:44.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:44.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:44.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:44.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:44.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:44.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:44.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:44.551][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.552][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.557][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:44.558][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:44.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.561][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:44.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:44.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.564][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:44.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:44.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:44.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:44.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.570][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:44.571][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:44.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:44.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:44.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:44.577][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:44.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.578][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:44.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:44.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.582][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:44.583][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:44.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.585][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:44.586][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.587][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.588][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:44.592][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:44.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.593][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:44.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:44.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.597][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:44.598][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:44.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.599][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:44.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:44.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.603][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:44.604][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:44.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.605][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.606][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:44.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:44.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:44.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:44.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.612][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:44.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:44.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:44.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:44.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:44.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:44.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:44.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:44.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:44.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:44.646][self$createEntryFromContent] Accession numbers: 214202.
biodb.TRACE[2024-11-16 16:06:44.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:44.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:44.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:44.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:44.656][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:44.658][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:44.659][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:44.660][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:44.993][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:45.327][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:45.329][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content"
biodb.TRACE[2024-11-16 16:06:45.331][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.request"
biodb.DEBUG[2024-11-16 16:06:45.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:45.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:45.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:45.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:45.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:45.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:45.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:45.342][private$loadEntries] Creating entries from ids [1]: "51836".
biodb.DEBUG[2024-11-16 16:06:45.343][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:45.344][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51836".
biodb.TRACE[2024-11-16 16:06:45.345][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:45.345][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:45.346][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:45.347][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:45.348][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:45.349][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:45.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:45.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:45.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:45.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:45.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:45.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:45.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:45.359][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.DEBUG[2024-11-16 16:06:45.362][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:45.363][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:45.364][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.TRACE[2024-11-16 16:06:45.693][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836).
biodb.DEBUG[2024-11-16 16:06:46.031][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:46.033][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.content"
biodb.TRACE[2024-11-16 16:06:46.036][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.request"
biodb.TRACE[2024-11-16 16:06:46.038][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51836.xml"
biodb.DEBUG[2024-11-16 16:06:46.039][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:46.040][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:46.041][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:46.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:46.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:46.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:46.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:46.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:46.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:46.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:46.052][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.055][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.071][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:46.072][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:46.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.073][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.074][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:46.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:46.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.077][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:46.078][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:46.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.079][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.080][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:46.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:46.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.083][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:46.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:46.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.085][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:46.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:46.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.089][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.090][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.091][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.096][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.097][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.101][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:46.101][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.103][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.104][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:46.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.109][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.112][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:46.113][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:46.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.114][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:46.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:46.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.118][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:46.119][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:46.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:46.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:46.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.124][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:46.125][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:46.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.127][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.128][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:46.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:46.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:46.161][self$createEntryFromContent] Accession numbers: 51836.
biodb.TRACE[2024-11-16 16:06:46.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:46.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:46.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:46.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:46.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:46.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:46.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:46.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:46.180][private$loadEntries] Creating entries from ids [1]: "51837".
biodb.DEBUG[2024-11-16 16:06:46.181][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:46.182][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51837".
biodb.TRACE[2024-11-16 16:06:46.183][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:46.184][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:46.185][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:46.186][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:46.187][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:46.188][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:46.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:46.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:46.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:46.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:46.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:46.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:46.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:46.200][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.DEBUG[2024-11-16 16:06:46.202][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:46.203][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:46.204][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.TRACE[2024-11-16 16:06:46.533][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837).
biodb.DEBUG[2024-11-16 16:06:46.866][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:46.868][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.content"
biodb.TRACE[2024-11-16 16:06:46.871][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.request"
biodb.TRACE[2024-11-16 16:06:46.873][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51837.xml"
biodb.DEBUG[2024-11-16 16:06:46.874][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:46.875][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:46.876][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:46.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:46.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:46.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:46.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:46.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:46.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:46.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:46.886][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.887][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.892][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:46.893][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:46.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.894][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.895][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:46.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:46.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.898][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:46.899][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:46.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.901][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:46.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:46.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:46.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:46.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:46.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:46.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.911][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.913][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:46.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.918][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.918][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.920][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.924][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:46.925][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.927][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:46.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.931][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.933][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.936][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:46.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:46.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:46.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:46.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.943][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:46.943][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:46.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.945][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:46.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:46.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.949][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:46.949][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:46.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:46.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:46.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:46.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:46.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:46.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:46.984][self$createEntryFromContent] Accession numbers: 51837.
biodb.TRACE[2024-11-16 16:06:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:46.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:46.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:47.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:47.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:47.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:47.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:47.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:47.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:47.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:47.009][private$loadEntries] Creating entries from ids [1]: "132205".
biodb.DEBUG[2024-11-16 16:06:47.010][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:47.011][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132205".
biodb.TRACE[2024-11-16 16:06:47.012][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:47.013][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:47.014][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:47.014][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:47.015][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:47.016][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:47.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:47.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:47.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:47.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:47.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:47.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:47.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:47.026][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.DEBUG[2024-11-16 16:06:47.028][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:47.029][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:47.030][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.TRACE[2024-11-16 16:06:47.363][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205).
biodb.DEBUG[2024-11-16 16:06:47.729][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:47.731][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.content"
biodb.TRACE[2024-11-16 16:06:47.734][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.request"
biodb.TRACE[2024-11-16 16:06:47.736][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132205.xml"
biodb.DEBUG[2024-11-16 16:06:47.737][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:47.738][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:47.739][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:47.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:47.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:47.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:47.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:47.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:47.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:47.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:47.750][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.751][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.757][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:47.758][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:47.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.759][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:47.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:47.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.763][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:47.763][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:47.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.765][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.766][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:47.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:47.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.769][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:47.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:47.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:47.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:47.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.775][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:47.776][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:47.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.777][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:47.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:47.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:47.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:47.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.784][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:47.785][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.788][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:47.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:47.792][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:47.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.793][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:47.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:47.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.797][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:47.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:47.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.800][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:47.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:47.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.804][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:47.805][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:47.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.806][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:47.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:47.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.810][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:47.811][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:47.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:47.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:47.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:47.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:47.846][self$createEntryFromContent] Accession numbers: 132205.
biodb.TRACE[2024-11-16 16:06:47.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:47.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:47.857][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:47.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:47.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:47.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:47.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:47.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:47.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:47.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.873][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.874][private$selectFields]
biodb.TRACE[2024-11-16 16:06:47.875][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:47.875][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:47.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.879][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.882][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.883][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.884][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.888][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:47.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.897][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2024-11-16 16:06:47.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:47.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:47.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:47.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:47.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:47.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:47.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:47.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.912][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.913][private$selectFields]
biodb.TRACE[2024-11-16 16:06:47.914][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:47.914][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:47.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.916][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.917][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.918][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.923][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.927][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:47.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.937][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2024-11-16 16:06:47.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:47.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:47.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:47.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:47.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:47.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:47.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:47.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.961][private$selectFields]
biodb.TRACE[2024-11-16 16:06:47.962][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:47.962][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:47.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.964][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.967][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.970][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:47.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.974][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:47.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:47.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:47.983][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2024-11-16 16:06:47.984][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:47.985][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:48.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:48.013][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.015][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:48.016][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:06:48.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:48.018][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:06:48.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.037][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.040][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:48.041][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:06:48.042][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:48.043][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:06:48.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.081][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:48.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.097][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.098][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.099][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.100][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.102][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.104][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.106][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.107][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.111][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.111][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.121][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-16 16:06:48.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.137][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.138][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.139][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.144][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.146][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.147][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.148][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.151][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.152][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.162][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:48.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.178][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.178][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.179][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.180][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.184][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.187][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.187][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.188][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.191][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.192][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.202][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-16 16:06:48.203][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:48.204][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:48.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:48.215][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.218][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:48.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-11-16 16:06:48.225][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:48.226][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-11-16 16:06:48.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.265][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.267][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:48.268][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-11-16 16:06:48.269][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:48.270][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-11-16 16:06:48.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.325][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:48.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.341][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.342][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.343][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.343][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.344][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.347][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.348][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.349][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.351][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.352][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.355][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.356][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.366][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:48.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.382][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.382][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.383][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.384][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.388][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.389][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.391][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.392][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.393][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.394][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.395][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.396][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.406][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:06:48.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.422][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.423][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.424][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.424][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.427][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.428][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.431][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.433][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.433][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.434][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.436][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.436][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.447][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:06:48.447][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:48.448][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:48.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:48.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.462][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:48.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-11-16 16:06:48.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:48.465][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-11-16 16:06:48.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.615][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.617][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:06:48.618][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-11-16 16:06:48.619][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:06:48.620][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-11-16 16:06:48.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:48.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:48.676][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:48.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.692][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.693][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.694][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.694][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.695][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.702][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.706][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.715][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:06:48.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.731][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.732][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.732][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.733][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.734][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.737][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.740][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.741][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.744][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.745][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.760][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-11-16 16:06:48.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:48.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.775][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.776][private$selectFields]
biodb.TRACE[2024-11-16 16:06:48.776][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:48.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:48.778][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.779][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.780][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.782][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.785][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:48.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.788][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:48.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:48.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:48.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:48.798][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-11-16 16:06:48.799][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:48.799][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:48.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:48.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:48.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:48.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:48.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:48.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:48.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:48.827][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:48.829][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:48.830][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:48.831][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:49.172][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:49.510][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:49.512][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content"
biodb.TRACE[2024-11-16 16:06:49.515][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.request"
biodb.DEBUG[2024-11-16 16:06:49.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:49.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:49.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:49.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:49.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:49.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:49.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:49.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:49.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:49.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:49.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:49.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:49.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:49.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:49.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:49.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:49.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:49.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:49.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:49.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:49.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:49.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:49.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:49.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:49.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:49.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:49.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:49.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:49.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:49.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:49.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:49.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:49.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:49.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:49.561][private$loadEntries] Creating entries from ids [1]: "28243".
biodb.DEBUG[2024-11-16 16:06:49.562][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:49.563][cch$loadFileContent] Trying to load 1 files from cache: [1]: "28243".
biodb.TRACE[2024-11-16 16:06:49.564][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:49.564][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:49.565][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:49.566][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:49.567][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:49.567][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:49.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:49.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:49.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:49.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:49.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:49.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:49.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:49.578][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.DEBUG[2024-11-16 16:06:49.580][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:49.580][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:49.582][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.TRACE[2024-11-16 16:06:49.912][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243).
biodb.DEBUG[2024-11-16 16:06:50.241][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:50.243][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.content"
biodb.TRACE[2024-11-16 16:06:50.246][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.request"
biodb.TRACE[2024-11-16 16:06:50.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/28243.xml"
biodb.DEBUG[2024-11-16 16:06:50.249][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:50.250][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:50.251][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:50.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:50.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:50.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:50.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:50.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:50.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:50.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:50.262][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.262][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.264][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.268][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:50.268][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:50.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.270][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.271][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:50.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:50.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.274][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:50.274][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:50.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.276][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:50.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:50.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.280][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:50.281][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:50.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.282][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:50.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:50.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.286][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:50.287][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:50.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.289][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:50.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:50.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:50.293][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:50.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.296][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:50.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:50.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.299][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:50.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.301][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.302][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:50.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.304][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:50.305][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:50.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.307][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:50.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:50.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.310][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:50.311][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:50.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.312][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:50.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:50.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.316][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:50.317][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:50.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.319][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.319][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:50.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:50.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:50.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:50.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.325][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.325][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:50.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:50.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:50.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:50.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:50.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:50.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:50.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:50.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:50.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:50.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:50.368][self$createEntryFromContent] Accession numbers: 28243.
biodb.TRACE[2024-11-16 16:06:50.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:50.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:50.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:50.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:50.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:50.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:50.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:50.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:50.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:50.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:50.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:50.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:50.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:50.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:50.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:50.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:50.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:50.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:50.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:50.403][private$loadEntries] Creating entries from ids [1]: "70786".
biodb.DEBUG[2024-11-16 16:06:50.404][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:50.405][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70786".
biodb.TRACE[2024-11-16 16:06:50.406][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:50.407][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:50.408][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:50.409][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:50.410][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:50.410][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:50.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:50.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:50.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:50.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:50.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:50.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:50.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:50.421][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.DEBUG[2024-11-16 16:06:50.423][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:50.424][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:50.425][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.TRACE[2024-11-16 16:06:50.759][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786).
biodb.DEBUG[2024-11-16 16:06:51.093][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:51.095][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.content"
biodb.TRACE[2024-11-16 16:06:51.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.request"
biodb.TRACE[2024-11-16 16:06:51.100][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70786.xml"
biodb.DEBUG[2024-11-16 16:06:51.101][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:51.102][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:51.103][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:51.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:51.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:51.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:51.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:51.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:51.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:51.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:51.114][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.121][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:51.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:51.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.123][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:51.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:51.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.127][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:51.128][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:51.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.129][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:51.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.133][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:51.134][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:51.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.135][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:51.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:51.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:51.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.142][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:51.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:51.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.145][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:51.146][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:51.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.148][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:51.149][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.151][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.152][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:51.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.155][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.157][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.161][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:51.161][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:51.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.163][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:51.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:51.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.167][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:51.168][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:51.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.169][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.170][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:51.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:51.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.173][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:51.174][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:51.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.175][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.176][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:51.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:51.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:51.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:51.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:51.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:51.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:51.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:51.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:51.209][self$createEntryFromContent] Accession numbers: 70786.
biodb.TRACE[2024-11-16 16:06:51.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:51.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:51.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:51.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:51.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:51.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:51.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:51.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:51.228][private$loadEntries] Creating entries from ids [1]: "78144".
biodb.DEBUG[2024-11-16 16:06:51.229][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:51.230][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78144".
biodb.TRACE[2024-11-16 16:06:51.231][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:51.232][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:51.233][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:51.233][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:51.234][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:51.235][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:51.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:51.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:51.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:51.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:51.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:51.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:51.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:51.246][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.DEBUG[2024-11-16 16:06:51.248][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:51.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:51.250][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.TRACE[2024-11-16 16:06:51.582][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144).
biodb.DEBUG[2024-11-16 16:06:51.914][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:51.915][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.content"
biodb.TRACE[2024-11-16 16:06:51.918][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.request"
biodb.TRACE[2024-11-16 16:06:51.920][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78144.xml"
biodb.DEBUG[2024-11-16 16:06:51.921][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:51.922][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:51.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:51.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:51.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:51.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:51.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:51.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:51.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:51.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:51.934][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.936][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:51.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:51.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.940][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:51.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:51.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.942][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.943][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:51.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:51.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.946][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:51.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:51.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.958][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:51.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:51.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:51.963][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:51.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.964][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.965][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:51.966][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:51.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.967][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.968][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:51.969][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:51.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.971][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:51.972][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.974][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:51.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:51.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.977][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.978][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.979][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:51.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.983][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:51.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:51.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.985][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:51.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:51.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.989][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:51.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:51.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.991][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.992][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:51.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:51.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:51.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:51.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:51.997][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:51.998][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:51.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:52.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:52.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:52.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:52.030][self$createEntryFromContent] Accession numbers: 78144.
biodb.TRACE[2024-11-16 16:06:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:52.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:52.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:52.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:52.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:52.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:52.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:52.040][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:52.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:52.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:52.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:52.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:52.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:52.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:52.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:52.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.057][private$selectFields]
biodb.TRACE[2024-11-16 16:06:52.058][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:52.058][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:52.059][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.060][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.061][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.062][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.065][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.067][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.070][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.070][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:52.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.080][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:06:52.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:52.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:52.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:52.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:52.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:52.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:52.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:52.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.096][private$selectFields]
biodb.TRACE[2024-11-16 16:06:52.097][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:52.098][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:52.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.099][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.104][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.105][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.106][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.109][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.110][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:52.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.119][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2024-11-16 16:06:52.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:52.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:52.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:52.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:52.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:52.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:52.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:52.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.134][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.135][private$selectFields]
biodb.TRACE[2024-11-16 16:06:52.136][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:52.137][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:52.137][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.144][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.145][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:52.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.148][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.148][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:52.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:52.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:52.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:52.158][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2024-11-16 16:06:52.159][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:52.160][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:52.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:52.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:52.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:52.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:52.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:52.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:52.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:52.171][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:52.174][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:52.174][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:52.176][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:52.511][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:53.006][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:53.008][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content"
biodb.TRACE[2024-11-16 16:06:53.011][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.request"
biodb.DEBUG[2024-11-16 16:06:53.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:53.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:53.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:53.077][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:06:53.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.093][private$selectFields]
biodb.TRACE[2024-11-16 16:06:53.094][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:53.094][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:53.095][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.096][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.097][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.098][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.099][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.102][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.103][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.104][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.105][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.106][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.107][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:53.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.116][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:06:53.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.133][private$selectFields]
biodb.TRACE[2024-11-16 16:06:53.133][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:53.134][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:53.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.137][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.142][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.145][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.146][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:53.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.156][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:06:53.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.172][private$selectFields]
biodb.TRACE[2024-11-16 16:06:53.173][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:06:53.173][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:06:53.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.177][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.180][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.181][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:06:53.182][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.184][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.185][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:06:53.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:53.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.194][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:06:53.195][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:06:53.196][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:06:53.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:53.206][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:06:53.209][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:53.209][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:53.211][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:06:53.543][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:06:53.876][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:53.878][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content"
biodb.TRACE[2024-11-16 16:06:53.881][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.request"
biodb.DEBUG[2024-11-16 16:06:53.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:53.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:53.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:53.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:53.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:53.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:53.909][private$loadEntries] Creating entries from ids [1]: "47739".
biodb.DEBUG[2024-11-16 16:06:53.910][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:53.911][cch$loadFileContent] Trying to load 1 files from cache: [1]: "47739".
biodb.TRACE[2024-11-16 16:06:53.912][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:53.913][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:53.914][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:53.914][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:53.915][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:53.916][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:53.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:53.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:53.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:53.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:53.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:53.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:53.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:53.926][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.DEBUG[2024-11-16 16:06:53.929][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:53.929][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:53.930][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.TRACE[2024-11-16 16:06:54.264][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739).
biodb.DEBUG[2024-11-16 16:06:54.595][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:54.597][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.content"
biodb.TRACE[2024-11-16 16:06:54.599][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.request"
biodb.TRACE[2024-11-16 16:06:54.601][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/47739.xml"
biodb.DEBUG[2024-11-16 16:06:54.602][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:54.603][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:54.604][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:54.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:54.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:54.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:54.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:54.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:54.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:54.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:54.615][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.616][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.617][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.621][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:54.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:54.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.629][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:54.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:54.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.637][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:54.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:54.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:54.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:54.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.643][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:54.644][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:54.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.645][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:54.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:54.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.649][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:54.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:54.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.651][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:54.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:54.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.655][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:54.656][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:54.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.657][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.658][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:54.659][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.661][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:54.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.664][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:54.665][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:54.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.667][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:54.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:54.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.671][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:54.671][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:54.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.673][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:54.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:54.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.676][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:54.677][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:54.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.679][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:54.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:54.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.682][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:54.683][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:54.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:54.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:54.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:54.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:54.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:54.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:54.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:54.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:54.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:54.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:54.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:54.717][self$createEntryFromContent] Accession numbers: 47739.
biodb.TRACE[2024-11-16 16:06:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:54.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:54.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:54.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:54.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:54.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:54.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:54.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:54.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:54.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:54.735][private$loadEntries] Creating entries from ids [1]: "51744".
biodb.DEBUG[2024-11-16 16:06:54.736][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:54.737][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51744".
biodb.TRACE[2024-11-16 16:06:54.738][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:54.739][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:54.740][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:54.740][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:54.741][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:54.742][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:54.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:54.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:54.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:54.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:54.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:54.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:54.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:54.752][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.DEBUG[2024-11-16 16:06:54.754][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:54.755][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:54.756][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.TRACE[2024-11-16 16:06:55.091][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744).
biodb.DEBUG[2024-11-16 16:06:55.422][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:55.424][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.content"
biodb.TRACE[2024-11-16 16:06:55.426][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.request"
biodb.TRACE[2024-11-16 16:06:55.428][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51744.xml"
biodb.DEBUG[2024-11-16 16:06:55.429][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:55.430][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:55.431][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:55.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:55.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:55.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:55.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:55.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:55.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:55.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:55.441][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.442][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.443][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.447][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:55.448][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:55.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.450][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:55.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:55.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.453][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:55.454][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:55.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:55.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.459][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:55.460][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:55.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:55.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:55.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.465][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:55.466][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:55.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.467][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:55.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:55.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:55.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:55.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.474][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:55.474][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.476][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.477][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:55.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.479][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:55.480][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:55.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.482][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:55.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:55.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.485][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:55.486][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:55.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:55.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:55.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.492][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:55.492][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:55.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.495][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:55.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:55.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.498][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:55.498][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:55.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.500][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:55.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:55.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:55.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:55.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:55.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:55.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:55.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:55.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:55.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:55.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:55.532][self$createEntryFromContent] Accession numbers: 51744.
biodb.TRACE[2024-11-16 16:06:55.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:55.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:55.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:55.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:55.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:55.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:55.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:55.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:55.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:55.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:55.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:55.558][private$loadEntries] Creating entries from ids [1]: "64473".
biodb.DEBUG[2024-11-16 16:06:55.558][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:55.559][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64473".
biodb.TRACE[2024-11-16 16:06:55.560][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:55.561][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:55.562][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:55.562][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:55.563][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:55.564][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:55.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:55.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:55.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:55.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:55.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:55.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:55.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:55.574][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.DEBUG[2024-11-16 16:06:55.576][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:55.576][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:55.577][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.TRACE[2024-11-16 16:06:55.931][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473).
biodb.DEBUG[2024-11-16 16:06:56.264][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:56.266][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.content"
biodb.TRACE[2024-11-16 16:06:56.268][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.request"
biodb.TRACE[2024-11-16 16:06:56.270][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64473.xml"
biodb.DEBUG[2024-11-16 16:06:56.271][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:56.272][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:56.273][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:56.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:56.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:56.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:56.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:56.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:56.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:56.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:56.283][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.284][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.285][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.289][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:56.289][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:56.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.291][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.292][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:56.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:56.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.294][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:56.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:56.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.296][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:56.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:56.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:56.301][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:56.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.302][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:56.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:56.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.306][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:56.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:56.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.308][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:56.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:56.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.312][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:56.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:56.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.314][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.315][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:56.316][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.317][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.318][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:56.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:56.321][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:56.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.323][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:56.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:56.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.327][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:56.327][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:56.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.329][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:56.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:56.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.333][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:56.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:56.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.335][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.336][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:56.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:56.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:56.339][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:56.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.341][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.342][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:56.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:56.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:56.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:56.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:56.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:56.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:56.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:56.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:56.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:56.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:56.374][self$createEntryFromContent] Accession numbers: 64473.
biodb.TRACE[2024-11-16 16:06:56.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:56.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:56.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:56.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:56.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:56.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:56.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:56.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:56.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:56.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:56.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:56.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:56.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:56.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:56.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:56.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:56.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:56.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:56.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:56.409][private$loadEntries] Creating entries from ids [1]: "75244".
biodb.DEBUG[2024-11-16 16:06:56.409][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:56.410][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75244".
biodb.TRACE[2024-11-16 16:06:56.411][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:56.412][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:56.413][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:56.414][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:56.414][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:56.415][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:56.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:56.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:56.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:56.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:56.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:56.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:56.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:56.425][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.DEBUG[2024-11-16 16:06:56.427][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:56.428][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:56.429][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.TRACE[2024-11-16 16:06:56.760][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244).
biodb.DEBUG[2024-11-16 16:06:57.092][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:57.093][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.content"
biodb.TRACE[2024-11-16 16:06:57.096][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.request"
biodb.TRACE[2024-11-16 16:06:57.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75244.xml"
biodb.DEBUG[2024-11-16 16:06:57.099][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:57.100][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:57.101][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:57.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:57.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:57.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:57.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:57.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:57.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:57.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:57.112][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.113][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.114][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.118][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:57.119][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:57.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.121][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:57.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:57.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.124][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:57.125][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:57.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.126][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.127][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:57.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:57.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:57.131][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:57.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.132][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:57.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:57.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.148][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.152][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.155][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.157][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:57.158][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.160][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.161][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:57.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.163][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.164][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.169][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:57.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:57.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.171][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:57.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:57.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.175][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:57.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:57.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.177][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.178][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:57.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:57.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.181][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:57.181][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:57.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.183][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:57.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:57.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:57.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:57.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:57.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:57.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:57.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:57.215][self$createEntryFromContent] Accession numbers: 75244.
biodb.TRACE[2024-11-16 16:06:57.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:57.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:57.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:57.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:57.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:57.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:57.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:57.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:57.233][private$loadEntries] Creating entries from ids [1]: "75311".
biodb.DEBUG[2024-11-16 16:06:57.233][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:57.235][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75311".
biodb.TRACE[2024-11-16 16:06:57.236][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:57.236][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:57.237][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:57.238][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:57.239][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:57.239][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:57.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:57.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:57.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:57.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:57.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:57.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:57.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:57.250][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.DEBUG[2024-11-16 16:06:57.252][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:57.253][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:57.254][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.TRACE[2024-11-16 16:06:57.590][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311).
biodb.DEBUG[2024-11-16 16:06:57.922][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:57.923][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.content"
biodb.TRACE[2024-11-16 16:06:57.926][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.request"
biodb.TRACE[2024-11-16 16:06:57.928][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75311.xml"
biodb.DEBUG[2024-11-16 16:06:57.929][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:57.930][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:57.931][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:57.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:57.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:57.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:57.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:57.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:57.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:57.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:57.942][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.943][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.945][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:57.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:57.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.949][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:57.949][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:57.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:57.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:57.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.955][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:57.955][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:57.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:57.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:57.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.961][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:57.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:57.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.963][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:57.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:57.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.967][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:57.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.972][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.975][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.975][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:57.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.978][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:57.979][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.981][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:57.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:57.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:57.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.990][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:57.991][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:57.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.992][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:57.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:57.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.996][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:57.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:57.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:57.998][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:57.999][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:58.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:58.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.002][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:58.003][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:58.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.004][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.005][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:58.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:58.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:58.038][self$createEntryFromContent] Accession numbers: 75311.
biodb.TRACE[2024-11-16 16:06:58.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:58.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:58.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:58.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:58.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:58.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:58.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:58.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:58.057][private$loadEntries] Creating entries from ids [1]: "75350".
biodb.DEBUG[2024-11-16 16:06:58.062][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:58.066][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75350".
biodb.TRACE[2024-11-16 16:06:58.067][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:58.068][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:58.069][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:58.069][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:58.070][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:58.071][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:58.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:58.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:58.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:58.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:58.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:58.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:58.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:58.081][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.DEBUG[2024-11-16 16:06:58.083][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:58.083][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:58.084][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.TRACE[2024-11-16 16:06:58.415][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350).
biodb.DEBUG[2024-11-16 16:06:58.746][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:58.747][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.content"
biodb.TRACE[2024-11-16 16:06:58.750][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.request"
biodb.TRACE[2024-11-16 16:06:58.752][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75350.xml"
biodb.DEBUG[2024-11-16 16:06:58.753][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:58.754][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:58.755][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:58.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:58.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:58.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:58.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:58.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:58.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:58.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:58.765][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.771][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:58.772][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:58.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.773][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.774][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:58.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:58.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.777][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:58.777][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:58.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.779][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.780][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:58.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:58.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:58.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:58.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:58.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:58.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:58.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:58.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:58.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:58.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.794][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:58.795][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:58.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.797][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:58.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.799][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.800][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:58.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:58.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:58.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.805][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:58.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:58.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.810][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:58.810][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:58.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.813][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.816][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:58.816][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:58.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.818][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.819][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:58.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:58.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.822][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:58.822][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:58.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.825][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:58.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:58.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:58.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:58.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:58.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:58.856][self$createEntryFromContent] Accession numbers: 75350.
biodb.TRACE[2024-11-16 16:06:58.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:58.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:58.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:58.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:58.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:58.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:58.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:58.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:58.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:58.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:58.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:58.874][private$loadEntries] Creating entries from ids [1]: "87236".
biodb.DEBUG[2024-11-16 16:06:58.875][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:58.876][cch$loadFileContent] Trying to load 1 files from cache: [1]: "87236".
biodb.TRACE[2024-11-16 16:06:58.877][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:58.878][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:58.878][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:58.879][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:58.880][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:58.881][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:58.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:58.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:58.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:58.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:58.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:58.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:58.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:58.891][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.DEBUG[2024-11-16 16:06:58.893][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:58.894][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:58.895][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.TRACE[2024-11-16 16:06:59.230][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236).
biodb.DEBUG[2024-11-16 16:06:59.562][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:06:59.564][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.content"
biodb.TRACE[2024-11-16 16:06:59.566][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.request"
biodb.TRACE[2024-11-16 16:06:59.568][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/87236.xml"
biodb.DEBUG[2024-11-16 16:06:59.570][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:06:59.571][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:06:59.572][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:06:59.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:59.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:59.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:59.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:59.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:59.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:59.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:06:59.583][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.583][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.589][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:59.590][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:59.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.592][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:06:59.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:06:59.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.595][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:59.596][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:59.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:06:59.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:06:59.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.601][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:59.602][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:59.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:06:59.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:06:59.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:59.608][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:59.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.609][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:06:59.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:06:59.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:59.614][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:06:59.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.615][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.616][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:59.617][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.618][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.619][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:06:59.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:59.623][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:59.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.624][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:59.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:06:59.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.628][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:59.629][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:59.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.630][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:06:59.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:06:59.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.634][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:59.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:59.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.651][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:06:59.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:06:59.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.654][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:59.655][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:59.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.657][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:06:59.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:06:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:59.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:59.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:59.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:59.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:06:59.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:06:59.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:06:59.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:06:59.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:59.688][self$createEntryFromContent] Accession numbers: 87236.
biodb.TRACE[2024-11-16 16:06:59.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:06:59.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:06:59.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:06:59.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:06:59.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:59.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:59.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:59.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:59.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:59.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:59.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:59.706][private$loadEntries] Creating entries from ids [1]: "132193".
biodb.DEBUG[2024-11-16 16:06:59.706][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:06:59.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132193".
biodb.TRACE[2024-11-16 16:06:59.708][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:06:59.709][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:06:59.710][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:06:59.711][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:06:59.711][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:06:59.712][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:06:59.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:06:59.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:06:59.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:06:59.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:06:59.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:06:59.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:06:59.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:06:59.722][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.DEBUG[2024-11-16 16:06:59.724][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:06:59.725][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:06:59.726][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.TRACE[2024-11-16 16:07:00.056][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193).
biodb.DEBUG[2024-11-16 16:07:00.394][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:00.395][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.content"
biodb.TRACE[2024-11-16 16:07:00.398][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.request"
biodb.TRACE[2024-11-16 16:07:00.400][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132193.xml"
biodb.DEBUG[2024-11-16 16:07:00.401][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:00.402][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:00.403][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:00.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:00.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:00.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:00.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:00.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:00.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:00.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:00.414][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.415][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.416][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.420][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:00.421][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:00.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.424][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:00.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:00.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.427][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:00.427][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:00.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.429][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:00.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:00.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.433][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:00.434][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:00.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:00.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:00.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.439][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:00.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:00.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:00.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:00.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.445][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:00.446][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:00.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.448][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:00.448][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.451][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:00.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:00.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:00.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.456][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:00.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:00.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.459][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:00.460][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:00.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:00.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:00.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.465][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:00.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:00.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.467][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:00.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:00.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:00.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:00.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:00.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:00.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:00.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:00.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:00.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:00.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:00.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:00.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:00.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:00.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:00.507][self$createEntryFromContent] Accession numbers: 132193.
biodb.TRACE[2024-11-16 16:07:00.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:00.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:00.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:00.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:00.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:00.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:00.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:00.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:00.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:00.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:00.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:00.525][private$loadEntries] Creating entries from ids [1]: "146002".
biodb.DEBUG[2024-11-16 16:07:00.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:00.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "146002".
biodb.TRACE[2024-11-16 16:07:00.528][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:00.528][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:00.529][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:00.530][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:00.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:00.531][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:00.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:00.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:00.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:00.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:00.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:00.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:00.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:00.542][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.DEBUG[2024-11-16 16:07:00.544][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:00.545][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:00.546][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.TRACE[2024-11-16 16:07:00.878][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002).
biodb.DEBUG[2024-11-16 16:07:01.212][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:01.214][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.content"
biodb.TRACE[2024-11-16 16:07:01.217][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.request"
biodb.TRACE[2024-11-16 16:07:01.219][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/146002.xml"
biodb.DEBUG[2024-11-16 16:07:01.220][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:01.221][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:01.222][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:01.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:01.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:01.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:01.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:01.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:01.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:01.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:01.243][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.244][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.249][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:01.250][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:01.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.252][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:01.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:01.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.255][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:01.256][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:01.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:01.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:01.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.261][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:01.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:01.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.263][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:01.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:01.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.266][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:01.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:01.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.268][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:01.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:01.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.272][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:01.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:01.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.275][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:01.276][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.278][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:01.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.281][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:01.281][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:01.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:01.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:01.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.286][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:01.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:01.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.288][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:01.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:01.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.292][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:01.293][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:01.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.294][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.295][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:01.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:01.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:01.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:01.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.300][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.301][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:01.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:01.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:01.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:01.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:01.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:01.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:01.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:01.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:01.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:01.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:01.332][self$createEntryFromContent] Accession numbers: 146002.
biodb.TRACE[2024-11-16 16:07:01.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:01.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:01.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:01.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:01.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:01.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:01.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:01.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:01.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:01.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:01.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:01.350][private$loadEntries] Creating entries from ids [1]: "65641".
biodb.DEBUG[2024-11-16 16:07:01.351][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:01.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65641".
biodb.TRACE[2024-11-16 16:07:01.353][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:01.354][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:01.355][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:01.355][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:01.356][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:01.357][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:01.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:01.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:01.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:01.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:01.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:01.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:01.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:01.368][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.DEBUG[2024-11-16 16:07:01.370][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:01.370][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:01.371][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.TRACE[2024-11-16 16:07:01.702][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641).
biodb.DEBUG[2024-11-16 16:07:02.037][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:02.039][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.content"
biodb.TRACE[2024-11-16 16:07:02.041][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.request"
biodb.TRACE[2024-11-16 16:07:02.044][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65641.xml"
biodb.DEBUG[2024-11-16 16:07:02.045][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:02.046][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:02.046][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:02.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:02.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:02.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:02.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:02.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:02.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:02.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:02.057][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.058][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.060][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.064][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:02.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:02.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:02.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:02.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.070][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:02.071][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:02.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.072][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:02.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:02.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:02.077][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:02.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.078][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:02.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:02.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.082][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.083][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.085][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:02.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:02.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.091][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.092][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:02.093][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.094][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.095][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:02.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.098][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.104][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:02.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:02.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.107][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:02.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:02.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.111][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:02.112][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:02.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:02.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:02.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.117][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:02.118][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:02.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.120][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:02.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:02.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:02.160][self$createEntryFromContent] Accession numbers: 65641.
biodb.TRACE[2024-11-16 16:07:02.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:02.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:02.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:02.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:02.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:02.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:02.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:02.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:02.178][private$loadEntries] Creating entries from ids [1]: "144071".
biodb.DEBUG[2024-11-16 16:07:02.178][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:02.180][cch$loadFileContent] Trying to load 1 files from cache: [1]: "144071".
biodb.TRACE[2024-11-16 16:07:02.180][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:02.181][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:02.182][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:02.183][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:02.184][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:02.184][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:02.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:02.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:02.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:02.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:02.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:02.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:02.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:02.195][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.DEBUG[2024-11-16 16:07:02.197][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:02.197][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:02.198][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.TRACE[2024-11-16 16:07:02.531][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071).
biodb.DEBUG[2024-11-16 16:07:02.865][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:02.867][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.content"
biodb.TRACE[2024-11-16 16:07:02.869][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.request"
biodb.TRACE[2024-11-16 16:07:02.871][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/144071.xml"
biodb.DEBUG[2024-11-16 16:07:02.872][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:02.873][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:02.874][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:02.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:02.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:02.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:02.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:02.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:02.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:02.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:02.884][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.885][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.891][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:02.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:02.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.893][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.894][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:02.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.897][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:02.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:02.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.899][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:02.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:02.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.902][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:02.903][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:02.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.904][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:02.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:02.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.908][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.910][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:02.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.914][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:02.915][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:02.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.916][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.917][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:02.918][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.920][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:02.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.923][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.924][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.925][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:02.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.929][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:02.929][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:02.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.931][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:02.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:02.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.935][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:02.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:02.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.938][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:02.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:02.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:02.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:02.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.943][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:02.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:02.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:02.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:02.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:02.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:02.975][self$createEntryFromContent] Accession numbers: 144071.
biodb.TRACE[2024-11-16 16:07:02.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:02.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:02.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:02.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:02.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:02.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:02.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:02.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:02.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:02.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:02.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:02.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:03.102][private$loadEntries] Creating entries from ids [1]: "168650".
biodb.DEBUG[2024-11-16 16:07:03.103][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:03.104][cch$loadFileContent] Trying to load 1 files from cache: [1]: "168650".
biodb.TRACE[2024-11-16 16:07:03.105][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:03.106][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:03.106][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:03.107][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:03.108][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:03.108][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:03.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:03.119][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.DEBUG[2024-11-16 16:07:03.120][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:03.121][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:03.122][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.TRACE[2024-11-16 16:07:03.452][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650).
biodb.DEBUG[2024-11-16 16:07:03.787][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:03.788][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.content"
biodb.TRACE[2024-11-16 16:07:03.791][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.request"
biodb.TRACE[2024-11-16 16:07:03.793][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/168650.xml"
biodb.DEBUG[2024-11-16 16:07:03.794][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:03.795][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:03.796][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:03.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.806][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.812][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:03.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:03.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:03.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.818][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:03.819][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:03.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.821][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:03.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:03.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:03.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:03.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.826][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:03.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:03.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:03.831][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:03.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:03.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:03.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:03.837][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:03.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.838][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.839][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:03.840][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.841][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.842][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:03.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.845][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:03.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:03.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.847][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:03.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:03.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.851][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:03.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:03.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.853][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:03.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:03.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.857][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:03.857][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:03.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.859][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.860][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:03.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:03.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.862][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:03.863][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:03.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.865][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:03.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:03.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:03.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:03.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:03.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:03.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:03.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:03.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:03.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:03.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.898][self$createEntryFromContent] Accession numbers: 168650.
biodb.TRACE[2024-11-16 16:07:03.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:03.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:03.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:03.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:03.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:03.933][private$loadEntries] Creating entries from ids [1]: "169305".
biodb.DEBUG[2024-11-16 16:07:03.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:03.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169305".
biodb.TRACE[2024-11-16 16:07:03.935][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:03.936][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:03.937][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:03.938][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:03.938][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:03.939][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:03.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:03.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:03.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:03.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:03.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:03.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:03.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:03.950][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.DEBUG[2024-11-16 16:07:03.952][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:03.952][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:03.954][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.TRACE[2024-11-16 16:07:04.287][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305).
biodb.DEBUG[2024-11-16 16:07:04.620][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:04.622][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.content"
biodb.TRACE[2024-11-16 16:07:04.625][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.request"
biodb.TRACE[2024-11-16 16:07:04.627][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169305.xml"
biodb.DEBUG[2024-11-16 16:07:04.628][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:04.629][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:04.629][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:04.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:04.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:04.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:04.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:04.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:04.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:04.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:04.640][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.641][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.642][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.646][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:04.647][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:04.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.649][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.649][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:04.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:04.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.662][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:04.663][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:04.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:04.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:04.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.669][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:04.670][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:04.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:04.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:04.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.675][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:04.676][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:04.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:04.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:04.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.681][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:04.682][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:04.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.683][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.684][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:04.685][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.686][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.687][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:04.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.690][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:04.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:04.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:04.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:04.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.696][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:04.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:04.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:04.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:04.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.702][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:04.703][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:04.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.704][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.705][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:04.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:04.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.708][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:04.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:04.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.710][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:04.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:04.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:04.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:04.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:04.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:04.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:04.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:04.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:04.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:04.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:04.742][self$createEntryFromContent] Accession numbers: 169305.
biodb.TRACE[2024-11-16 16:07:04.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:04.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:04.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:04.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:04.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:04.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:04.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:04.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:04.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:04.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:04.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:04.761][private$loadEntries] Creating entries from ids [1]: "176869".
biodb.DEBUG[2024-11-16 16:07:04.762][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:04.763][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176869".
biodb.TRACE[2024-11-16 16:07:04.764][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:04.764][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:04.765][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:04.766][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:04.767][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:04.767][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:04.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:04.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:04.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:04.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:04.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:04.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:04.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:04.778][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.DEBUG[2024-11-16 16:07:04.780][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:04.781][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:04.782][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.TRACE[2024-11-16 16:07:05.113][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869).
biodb.DEBUG[2024-11-16 16:07:05.445][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:05.447][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.content"
biodb.TRACE[2024-11-16 16:07:05.449][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.request"
biodb.TRACE[2024-11-16 16:07:05.452][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176869.xml"
biodb.DEBUG[2024-11-16 16:07:05.453][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:05.454][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:05.454][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:05.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:05.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:05.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:05.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:05.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:05.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:05.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:05.466][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.466][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.468][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.472][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:05.473][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:05.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.474][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.475][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:05.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:05.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.478][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:05.479][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:05.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.480][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:05.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.484][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:05.485][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:05.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:05.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:05.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.491][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:05.491][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:05.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:05.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:05.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.497][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:05.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:05.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.501][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:05.501][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.503][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:05.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.507][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:05.508][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:05.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:05.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:05.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.513][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:05.514][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:05.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:05.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:05.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.519][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:05.520][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:05.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.522][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:05.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:05.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.525][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:05.526][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:05.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.527][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.528][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:05.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:05.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:05.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:05.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:05.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:05.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:05.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:05.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:05.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:05.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:05.562][self$createEntryFromContent] Accession numbers: 176869.
biodb.TRACE[2024-11-16 16:07:05.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:05.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:05.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:05.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:05.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:05.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:05.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:05.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:05.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:05.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:05.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:05.588][private$loadEntries] Creating entries from ids [1]: "185696".
biodb.DEBUG[2024-11-16 16:07:05.589][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:05.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "185696".
biodb.TRACE[2024-11-16 16:07:05.591][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:05.591][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:05.592][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:05.593][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:05.594][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:05.595][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:05.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:05.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:05.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:05.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:05.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:05.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:05.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:05.605][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.DEBUG[2024-11-16 16:07:05.607][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:05.607][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:05.608][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.TRACE[2024-11-16 16:07:05.943][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696).
biodb.DEBUG[2024-11-16 16:07:06.273][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:06.275][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.content"
biodb.TRACE[2024-11-16 16:07:06.277][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.request"
biodb.TRACE[2024-11-16 16:07:06.279][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/185696.xml"
biodb.DEBUG[2024-11-16 16:07:06.280][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:06.281][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:06.282][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:06.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:06.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:06.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:06.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:06.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:06.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:06.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:06.292][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.293][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.299][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:06.299][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:06.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.301][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.301][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:06.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:06.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.304][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:06.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:06.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.306][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:06.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:06.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.310][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:06.311][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:06.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.312][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:06.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:06.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:06.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:06.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.318][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:06.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:06.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.322][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:06.323][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:06.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.324][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.325][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:06.326][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.327][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.328][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:06.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.331][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:06.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:06.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.333][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:06.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:06.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.337][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:06.338][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:06.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.339][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:06.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:06.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.344][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:06.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:06.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.346][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.347][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:06.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:06.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.350][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:06.350][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:06.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.352][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.353][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:06.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:06.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:06.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:06.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:06.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:06.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:06.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:06.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:06.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:06.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:06.384][self$createEntryFromContent] Accession numbers: 185696.
biodb.TRACE[2024-11-16 16:07:06.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:06.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:06.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:06.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:06.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:06.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:06.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:06.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:06.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:06.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:06.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:06.402][private$loadEntries] Creating entries from ids [1]: "190762".
biodb.DEBUG[2024-11-16 16:07:06.403][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:06.404][cch$loadFileContent] Trying to load 1 files from cache: [1]: "190762".
biodb.TRACE[2024-11-16 16:07:06.405][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:06.406][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:06.407][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:06.407][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:06.408][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:06.409][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:06.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:06.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:06.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:06.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:06.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:06.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:06.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:06.420][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.DEBUG[2024-11-16 16:07:06.422][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:06.422][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:06.423][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.TRACE[2024-11-16 16:07:06.754][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762).
biodb.DEBUG[2024-11-16 16:07:07.085][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:07.087][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.content"
biodb.TRACE[2024-11-16 16:07:07.090][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.request"
biodb.TRACE[2024-11-16 16:07:07.091][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/190762.xml"
biodb.DEBUG[2024-11-16 16:07:07.093][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:07.094][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:07.094][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:07.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:07.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:07.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:07.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:07.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:07.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:07.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:07.105][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.106][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.107][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.111][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:07.112][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:07.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.114][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:07.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:07.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.117][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:07.118][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:07.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.121][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:07.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.125][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:07.126][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:07.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.127][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:07.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.131][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.132][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.133][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.137][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:07.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:07.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.139][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.140][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:07.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.142][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.143][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:07.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.147][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.149][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.163][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:07.164][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:07.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.166][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:07.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:07.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.170][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:07.170][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:07.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.172][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:07.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:07.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:07.176][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:07.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.179][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:07.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:07.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:07.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:07.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:07.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:07.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:07.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:07.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:07.210][self$createEntryFromContent] Accession numbers: 190762.
biodb.TRACE[2024-11-16 16:07:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:07.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:07.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:07.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:07.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:07.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:07.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:07.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:07.229][private$loadEntries] Creating entries from ids [1]: "193176".
biodb.DEBUG[2024-11-16 16:07:07.229][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:07.231][cch$loadFileContent] Trying to load 1 files from cache: [1]: "193176".
biodb.TRACE[2024-11-16 16:07:07.232][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:07.232][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:07.233][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:07.234][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:07.235][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:07.235][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:07.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:07.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:07.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:07.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:07.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:07.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:07.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:07.246][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.DEBUG[2024-11-16 16:07:07.248][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:07.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:07.250][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.TRACE[2024-11-16 16:07:07.585][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176).
biodb.DEBUG[2024-11-16 16:07:07.920][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:07.922][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.content"
biodb.TRACE[2024-11-16 16:07:07.925][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.request"
biodb.TRACE[2024-11-16 16:07:07.927][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/193176.xml"
biodb.DEBUG[2024-11-16 16:07:07.928][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:07.929][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:07.930][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:07.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:07.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:07.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:07.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:07.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:07.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:07.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:07.941][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.942][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:07.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:07.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.947][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:07.948][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:07.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.950][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:07.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:07.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.954][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:07.954][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:07.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.956][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:07.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:07.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:07.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:07.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.962][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:07.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:07.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.966][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.967][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.968][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:07.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.973][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:07.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:07.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.975][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.976][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:07.976][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.978][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:07.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:07.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.983][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.984][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:07.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.988][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:07.989][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:07.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.991][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:07.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:07.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:07.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:07.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:07.997][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:07.998][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:07.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:07.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:08.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:08.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.003][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.004][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:08.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:08.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:08.037][self$createEntryFromContent] Accession numbers: 193176.
biodb.TRACE[2024-11-16 16:07:08.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:08.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:08.055][private$loadEntries] Creating entries from ids [1]: "196395".
biodb.DEBUG[2024-11-16 16:07:08.056][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:08.057][cch$loadFileContent] Trying to load 1 files from cache: [1]: "196395".
biodb.TRACE[2024-11-16 16:07:08.058][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:08.059][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:08.060][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:08.061][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:08.061][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:08.062][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:08.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:08.073][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.DEBUG[2024-11-16 16:07:08.075][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:08.075][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:08.077][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.TRACE[2024-11-16 16:07:08.407][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395).
biodb.DEBUG[2024-11-16 16:07:08.739][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:08.740][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.content"
biodb.TRACE[2024-11-16 16:07:08.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.request"
biodb.TRACE[2024-11-16 16:07:08.755][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/196395.xml"
biodb.DEBUG[2024-11-16 16:07:08.756][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:08.757][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:08.758][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:08.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:08.769][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.770][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.772][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.776][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:08.776][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:08.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.778][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.778][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:08.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:08.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.781][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:08.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:08.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.784][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:08.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:08.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.787][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:08.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:08.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.789][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.793][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:08.794][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:08.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.795][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:08.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:08.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.799][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:08.800][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:08.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.801][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.802][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:08.803][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.805][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:08.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:08.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:08.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:08.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:08.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.813][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:08.814][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:08.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:08.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:08.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.819][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:08.820][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:08.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:08.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.825][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:08.826][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:08.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.828][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:08.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:08.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:08.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:08.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:08.860][self$createEntryFromContent] Accession numbers: 196395.
biodb.TRACE[2024-11-16 16:07:08.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:08.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:08.911][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:08.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.927][private$selectFields]
biodb.TRACE[2024-11-16 16:07:08.928][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:08.929][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:08.930][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.937][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.938][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.940][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:08.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.950][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:08.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:08.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.965][private$selectFields]
biodb.TRACE[2024-11-16 16:07:08.966][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:08.966][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:08.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.974][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:08.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.977][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.977][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:08.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.987][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-11-16 16:07:08.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:08.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:08.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:08.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:08.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:08.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:08.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:08.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:08.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:08.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:08.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.002][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.003][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.004][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.007][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.009][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.010][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.011][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.012][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.013][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.015][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.016][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.031][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-11-16 16:07:09.032][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:09.032][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:09.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:09.058][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.060][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.061][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ebf8c17fa19fb0caf99d83ca8441a2ac".
biodb.TRACE[2024-11-16 16:07:09.062][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.063][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content".
biodb.DEBUG[2024-11-16 16:07:09.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.133][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:09.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.149][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.149][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.150][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.154][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.155][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.156][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.157][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.158][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.159][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.161][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.161][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.171][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-11-16 16:07:09.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.187][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.187][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.191][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.196][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.199][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.199][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.209][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2024-11-16 16:07:09.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.225][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.226][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.227][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.227][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.228][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.235][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.237][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.238][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.248][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2024-11-16 16:07:09.249][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:09.249][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:09.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:09.261][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.263][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "152225e020c3e5947a0f5a90f021cee7".
biodb.TRACE[2024-11-16 16:07:09.265][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.266][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content".
biodb.DEBUG[2024-11-16 16:07:09.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.393][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:09.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.408][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.409][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.409][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.410][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.411][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.415][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.415][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.418][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.419][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.420][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.421][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.422][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.432][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2024-11-16 16:07:09.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.448][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.448][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.449][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.450][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.453][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.456][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.457][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.458][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.460][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.461][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.471][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2024-11-16 16:07:09.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.488][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.488][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.489][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.490][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.497][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.497][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.501][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.510][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2024-11-16 16:07:09.511][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:09.512][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:09.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:09.523][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.525][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9686ce9c957a368dd8f5b4cc9c5b15b3".
biodb.TRACE[2024-11-16 16:07:09.527][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.528][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content".
biodb.DEBUG[2024-11-16 16:07:09.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.570][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.572][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.573][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5d833e77a1be58060d0c3916a1e1b293".
biodb.TRACE[2024-11-16 16:07:09.574][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.575][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content".
biodb.DEBUG[2024-11-16 16:07:09.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.627][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:09.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.643][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.644][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.645][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.646][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.649][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.652][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.653][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.657][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.667][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2024-11-16 16:07:09.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.683][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.683][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.684][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.685][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.685][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.688][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.690][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.692][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.695][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.695][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.705][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2024-11-16 16:07:09.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.721][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.722][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.722][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.724][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.725][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.729][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.731][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.733][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.734][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2024-11-16 16:07:09.745][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:09.745][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:09.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:09.772][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.774][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.775][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:07:09.776][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.777][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:07:09.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.802][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.805][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.806][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:07:09.806][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.807][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:07:09.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:09.844][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:09.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.860][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.861][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.861][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.865][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.868][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.870][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.872][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.873][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.883][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-16 16:07:09.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.899][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.900][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.901][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.901][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.904][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.909][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.912][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.912][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.923][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:07:09.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.939][private$selectFields]
biodb.TRACE[2024-11-16 16:07:09.940][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:09.940][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:09.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.944][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.947][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.948][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:09.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.952][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:09.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.962][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-16 16:07:09.963][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:09.964][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:09.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:09.975][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:09.978][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:09.979][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-11-16 16:07:09.980][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:09.981][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-11-16 16:07:09.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:09.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:09.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:09.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:09.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:09.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:09.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:09.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:09.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:10.020][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:10.021][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-11-16 16:07:10.022][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:10.023][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-11-16 16:07:10.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.084][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:10.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.100][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.101][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.102][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.104][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.105][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.108][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.110][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.113][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.123][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:10.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.139][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.140][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.141][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.145][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.145][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.148][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.149][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.152][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.153][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.163][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:07:10.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.180][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.181][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.181][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.182][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.185][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.188][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.189][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.203][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:07:10.204][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:10.205][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:10.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:10.216][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:10.219][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:10.220][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-11-16 16:07:10.221][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:10.222][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-11-16 16:07:10.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.372][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:10.374][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:10.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-11-16 16:07:10.376][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:10.377][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-11-16 16:07:10.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.431][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:10.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.447][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.448][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.448][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.452][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.453][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.456][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.457][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.459][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.460][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:10.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.486][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.486][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.487][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.488][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.489][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.490][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.491][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.495][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.496][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.497][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.499][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.510][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-11-16 16:07:10.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.525][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.526][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.527][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.528][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.529][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.530][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.531][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.534][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.536][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.536][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.539][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.539][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.550][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-11-16 16:07:10.550][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:10.551][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:10.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:10.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:10.587][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:10.588][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2b6f29bb7a7663ff23fb5e7dcae5c27f".
biodb.TRACE[2024-11-16 16:07:10.589][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:10.590][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content".
biodb.DEBUG[2024-11-16 16:07:10.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.697][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:10.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.713][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.714][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.715][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.716][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.720][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.721][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.723][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.724][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.727][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.736][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:07:10.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.752][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.760][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.761][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.762][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.763][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.765][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.766][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.777][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2024-11-16 16:07:10.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.793][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.793][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.794][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.801][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.802][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.803][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.805][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.806][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.816][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2024-11-16 16:07:10.817][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:10.817][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:10.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:10.828][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:10.831][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:10.832][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9a13652ab89a613a3b0e10d3b6cb10a0".
biodb.TRACE[2024-11-16 16:07:10.832][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:10.834][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content".
biodb.DEBUG[2024-11-16 16:07:10.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:10.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:10.894][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:10.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.909][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.910][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.910][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.916][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.918][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.920][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.921][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.931][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:10.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.948][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.949][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.949][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.951][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.952][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.953][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.954][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.956][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.958][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.961][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.961][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:10.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.971][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:07:10.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:10.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:10.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:10.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:10.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:10.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:10.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:10.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.987][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.988][private$selectFields]
biodb.TRACE[2024-11-16 16:07:10.989][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:10.989][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:10.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.993][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.994][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.994][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:10.996][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:10.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.998][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:10.998][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:10.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.001][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.001][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:11.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.011][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-11-16 16:07:11.012][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:11.013][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:11.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:11.024][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:11.026][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:11.027][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a985300ab8a01d49254fbf993ad91279".
biodb.TRACE[2024-11-16 16:07:11.028][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:11.029][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content".
biodb.DEBUG[2024-11-16 16:07:11.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:11.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.531][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:11.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.546][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.547][private$selectFields]
biodb.TRACE[2024-11-16 16:07:11.548][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:11.549][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:11.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.552][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.553][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.555][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.556][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.557][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.557][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.558][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.560][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.570][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:11.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.585][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.586][private$selectFields]
biodb.TRACE[2024-11-16 16:07:11.587][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:11.587][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:11.588][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.595][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.598][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.599][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:11.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.610][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-11-16 16:07:11.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:11.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.631][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.631][private$selectFields]
biodb.TRACE[2024-11-16 16:07:11.632][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:11.633][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:11.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.637][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.637][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.638][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.639][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.641][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:11.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.645][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:11.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:11.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.654][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-11-16 16:07:11.655][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:11.656][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:07:11.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:11.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:11.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:11.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:11.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:11.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:11.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:11.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:11.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:11.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:11.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:11.717][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:11.720][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:11.720][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:11.722][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:07:12.060][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:07:12.635][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:12.637][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content"
biodb.TRACE[2024-11-16 16:07:12.640][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.request"
biodb.DEBUG[2024-11-16 16:07:12.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:12.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:12.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:12.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:12.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:12.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:12.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:12.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:12.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:12.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:12.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:12.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:12.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:12.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:12.741][private$loadEntries] Creating entries from ids [1]: "9442".
biodb.DEBUG[2024-11-16 16:07:12.742][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:12.743][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9442".
biodb.TRACE[2024-11-16 16:07:12.744][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:12.744][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:12.745][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:12.746][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:12.747][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:12.747][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:12.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:12.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:12.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:12.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:12.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:12.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:12.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:12.758][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.DEBUG[2024-11-16 16:07:12.761][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:12.761][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:12.762][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.TRACE[2024-11-16 16:07:13.097][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442).
biodb.DEBUG[2024-11-16 16:07:13.427][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:13.429][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.content"
biodb.TRACE[2024-11-16 16:07:13.431][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.request"
biodb.TRACE[2024-11-16 16:07:13.433][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9442.xml"
biodb.DEBUG[2024-11-16 16:07:13.435][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:13.436][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:13.437][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:13.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:13.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:13.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:13.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:13.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:13.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:13.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:13.448][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.448][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.465][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:13.466][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:13.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.467][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.468][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:13.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:13.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.472][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:13.472][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:13.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.474][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:13.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:13.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.478][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:13.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:13.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.480][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:13.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:13.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.484][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:13.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:13.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.486][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:13.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:13.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.490][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:13.491][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:13.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.492][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:13.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:13.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.495][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:13.496][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:13.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.498][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:13.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:13.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.501][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.507][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:13.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:13.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:13.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:13.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.513][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:13.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:13.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:13.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:13.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.519][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:13.519][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:13.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.521][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.522][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:13.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:13.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:13.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:13.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:13.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:13.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:13.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:13.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:13.553][self$createEntryFromContent] Accession numbers: 9442.
biodb.TRACE[2024-11-16 16:07:13.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:13.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:13.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:13.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:13.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:13.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:13.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:13.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:13.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:13.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:13.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:13.571][private$loadEntries] Creating entries from ids [1]: "34764".
biodb.DEBUG[2024-11-16 16:07:13.572][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:13.573][cch$loadFileContent] Trying to load 1 files from cache: [1]: "34764".
biodb.TRACE[2024-11-16 16:07:13.574][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:13.575][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:13.576][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:13.577][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:13.577][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:13.578][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:13.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:13.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:13.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:13.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:13.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:13.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:13.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:13.590][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.DEBUG[2024-11-16 16:07:13.592][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:13.593][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:13.594][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.TRACE[2024-11-16 16:07:13.927][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764).
biodb.DEBUG[2024-11-16 16:07:14.257][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:14.258][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.content"
biodb.TRACE[2024-11-16 16:07:14.261][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.request"
biodb.TRACE[2024-11-16 16:07:14.263][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34764.xml"
biodb.DEBUG[2024-11-16 16:07:14.264][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:14.265][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:14.266][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:14.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:14.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:14.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:14.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:14.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:14.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:14.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:14.277][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.278][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.279][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.284][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:14.284][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:14.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.286][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.287][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:14.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:14.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.290][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:14.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:14.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.292][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:14.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:14.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.296][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:14.296][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:14.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:14.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:14.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:14.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:14.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.304][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:14.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:14.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:14.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:14.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.310][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:14.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:14.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.313][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:14.314][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:14.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.316][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.316][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:14.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:14.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.325][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:14.326][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:14.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.327][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:14.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:14.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.331][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:14.332][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:14.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.334][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:14.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:14.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.337][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:14.338][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:14.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.340][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:14.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:14.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:14.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:14.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:14.381][self$createEntryFromContent] Accession numbers: 34764.
biodb.TRACE[2024-11-16 16:07:14.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:14.390][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:14.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:14.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:14.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:14.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:14.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:14.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:14.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:14.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.406][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.406][private$selectFields]
biodb.TRACE[2024-11-16 16:07:14.407][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:14.408][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:14.408][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.409][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.410][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.412][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.415][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.418][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.419][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:14.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.428][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-11-16 16:07:14.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:14.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:14.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:14.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:14.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:14.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:14.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:14.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.444][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.444][private$selectFields]
biodb.TRACE[2024-11-16 16:07:14.445][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:14.446][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:14.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.452][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.453][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.456][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.457][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:14.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.467][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:14.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:14.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:14.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:14.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:14.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:14.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:14.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:14.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.482][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.482][private$selectFields]
biodb.TRACE[2024-11-16 16:07:14.483][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:14.484][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:14.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.489][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.491][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:14.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.495][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:14.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:14.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:14.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:14.505][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2024-11-16 16:07:14.505][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:14.506][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:14.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:14.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:14.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:14.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:14.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:14.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:14.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:14.517][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:14.520][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:14.520][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:14.522][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:07:14.867][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:07:15.517][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:15.519][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content"
biodb.TRACE[2024-11-16 16:07:15.522][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.request"
biodb.DEBUG[2024-11-16 16:07:15.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:15.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:15.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:15.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:15.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:15.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:15.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:15.536][private$loadEntries] Creating entries from ids [1]: "2535".
biodb.DEBUG[2024-11-16 16:07:15.536][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:15.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2535".
biodb.TRACE[2024-11-16 16:07:15.538][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:15.539][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:15.540][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:15.541][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:15.541][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:15.542][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:15.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:15.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:15.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:15.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:15.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:15.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:15.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:15.553][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.DEBUG[2024-11-16 16:07:15.555][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:15.556][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:15.557][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.TRACE[2024-11-16 16:07:15.897][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535).
biodb.DEBUG[2024-11-16 16:07:16.229][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:16.231][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.content"
biodb.TRACE[2024-11-16 16:07:16.234][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.request"
biodb.TRACE[2024-11-16 16:07:16.236][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2535.xml"
biodb.DEBUG[2024-11-16 16:07:16.237][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:16.238][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:16.239][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:16.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:16.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:16.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:16.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:16.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:16.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:16.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:16.250][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.251][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.252][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.256][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:16.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:16.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.258][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.259][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:16.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:16.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.262][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:16.263][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:16.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.264][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:16.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:16.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.269][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:16.269][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:16.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:16.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:16.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:16.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:16.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:16.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.281][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:16.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:16.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.312][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:16.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:16.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.316][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:16.317][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:16.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.319][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.320][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:16.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:16.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.323][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.325][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.329][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:16.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:16.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.331][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.332][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:16.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:16.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.335][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:16.336][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:16.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.337][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.338][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:16.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:16.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.341][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:16.342][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:16.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.344][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.345][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:16.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:16.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:16.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:16.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:16.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:16.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:16.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:16.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:16.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:16.377][self$createEntryFromContent] Accession numbers: 2535.
biodb.TRACE[2024-11-16 16:07:16.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:16.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:16.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:16.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:16.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:16.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:16.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:16.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:16.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:16.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:16.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:16.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:16.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:16.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:16.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:16.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:16.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:16.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:16.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:16.414][private$loadEntries] Creating entries from ids [1]: "5525".
biodb.DEBUG[2024-11-16 16:07:16.414][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:16.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5525".
biodb.TRACE[2024-11-16 16:07:16.417][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:16.417][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:16.418][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:16.419][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:16.420][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:16.421][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:16.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:16.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:16.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:16.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:16.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:16.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:16.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:16.432][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.DEBUG[2024-11-16 16:07:16.434][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:16.435][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:16.436][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.TRACE[2024-11-16 16:07:16.765][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525).
biodb.DEBUG[2024-11-16 16:07:17.094][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:17.096][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.content"
biodb.TRACE[2024-11-16 16:07:17.099][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.request"
biodb.TRACE[2024-11-16 16:07:17.101][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5525.xml"
biodb.DEBUG[2024-11-16 16:07:17.102][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:17.103][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:17.104][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:17.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:17.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:17.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:17.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:17.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:17.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:17.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:17.115][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.121][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:17.122][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:17.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.124][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.125][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:17.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:17.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.128][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:17.129][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:17.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.130][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:17.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:17.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:17.135][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:17.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:17.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:17.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.140][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:17.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:17.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.142][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:17.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:17.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.146][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:17.147][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:17.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.148][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:17.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:17.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.152][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:17.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:17.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.155][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:17.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:17.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.158][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.160][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.164][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:17.165][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:17.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.166][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:17.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:17.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.170][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:17.171][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:17.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.172][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:17.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:17.177][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:17.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.179][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:17.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:17.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:17.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:17.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:17.213][self$createEntryFromContent] Accession numbers: 5525.
biodb.TRACE[2024-11-16 16:07:17.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:17.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:17.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:17.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:17.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:17.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:17.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:17.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:17.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:17.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:17.249][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:17.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:17.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:17.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:17.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:17.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:17.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:17.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:17.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.265][private$selectFields]
biodb.TRACE[2024-11-16 16:07:17.265][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:17.266][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:17.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.272][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.274][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.277][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:17.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.287][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2024-11-16 16:07:17.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:17.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:17.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:17.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:17.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:17.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:17.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.302][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.303][private$selectFields]
biodb.TRACE[2024-11-16 16:07:17.303][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:17.304][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:17.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.306][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.307][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.312][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.314][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.315][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:17.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.325][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:17.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:17.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:17.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:17.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:17.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:17.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:17.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:17.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.341][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.342][private$selectFields]
biodb.TRACE[2024-11-16 16:07:17.343][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:17.343][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:17.344][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.347][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.348][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.349][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.350][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.352][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:17.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.355][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.355][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:17.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:17.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:17.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:17.365][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:07:17.366][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:17.367][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:17.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:17.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:17.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:17.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:17.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:17.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:17.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:17.378][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:17.381][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:17.382][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:17.383][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:07:17.714][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:07:18.046][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:18.048][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content"
biodb.TRACE[2024-11-16 16:07:18.051][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.request"
biodb.DEBUG[2024-11-16 16:07:18.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:18.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:18.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:18.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:18.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:18.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:18.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:18.061][private$loadEntries] Creating entries from ids [1]: "31303".
biodb.DEBUG[2024-11-16 16:07:18.062][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:18.063][cch$loadFileContent] Trying to load 1 files from cache: [1]: "31303".
biodb.TRACE[2024-11-16 16:07:18.064][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:18.065][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:18.066][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:18.066][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:18.067][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:18.068][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:18.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:18.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:18.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:18.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:18.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:18.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:18.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:18.078][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.DEBUG[2024-11-16 16:07:18.080][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:18.081][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:18.082][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.TRACE[2024-11-16 16:07:18.414][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303).
biodb.DEBUG[2024-11-16 16:07:18.744][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:18.746][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.content"
biodb.TRACE[2024-11-16 16:07:18.749][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.request"
biodb.TRACE[2024-11-16 16:07:18.751][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/31303.xml"
biodb.DEBUG[2024-11-16 16:07:18.752][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:18.753][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:18.754][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:18.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:18.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:18.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:18.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:18.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:18.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:18.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:18.765][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.771][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:18.772][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:18.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.773][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.774][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:18.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:18.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.777][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:18.778][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:18.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.779][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.780][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:18.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:18.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:18.784][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:18.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:18.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:18.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.789][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:18.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:18.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.791][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:18.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:18.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.794][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:18.795][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:18.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.797][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.798][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:18.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:18.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.811][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:18.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:18.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.814][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.815][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.821][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:18.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:18.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.824][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:18.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:18.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.828][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:18.828][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:18.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:18.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:18.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:18.834][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:18.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.835][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:18.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:18.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:18.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:18.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:18.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:18.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:18.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:18.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:18.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:18.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:18.868][self$createEntryFromContent] Accession numbers: 31303.
biodb.TRACE[2024-11-16 16:07:18.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:18.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:18.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:18.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:18.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:18.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:18.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:18.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:18.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:18.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:18.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:18.885][private$loadEntries] Creating entries from ids [1]: "37118".
biodb.DEBUG[2024-11-16 16:07:18.886][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:18.887][cch$loadFileContent] Trying to load 1 files from cache: [1]: "37118".
biodb.TRACE[2024-11-16 16:07:18.888][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:18.889][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:18.890][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:18.890][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:18.891][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:18.892][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:18.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:18.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:18.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:18.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:18.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:18.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:18.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:18.903][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.DEBUG[2024-11-16 16:07:18.904][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:18.905][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:18.906][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.TRACE[2024-11-16 16:07:19.236][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118).
biodb.DEBUG[2024-11-16 16:07:19.602][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:19.605][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.content"
biodb.TRACE[2024-11-16 16:07:19.607][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.request"
biodb.TRACE[2024-11-16 16:07:19.609][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37118.xml"
biodb.DEBUG[2024-11-16 16:07:19.610][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:19.611][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:19.612][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:19.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:19.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:19.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:19.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:19.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:19.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:19.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:19.623][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.624][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.625][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.629][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:19.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:19.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.631][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.633][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:19.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:19.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.636][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:19.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:19.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.639][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:19.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:19.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.642][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:19.643][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:19.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:19.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:19.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.648][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:19.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:19.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:19.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:19.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:19.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.657][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:19.658][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:19.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.661][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:19.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:19.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.664][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.664][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.666][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.669][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:19.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:19.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:19.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:19.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.675][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:19.676][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:19.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.678][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:19.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:19.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.681][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:19.682][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:19.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.683][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:19.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:19.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:19.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:19.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:19.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:19.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:19.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:19.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:19.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:19.715][self$createEntryFromContent] Accession numbers: 37118.
biodb.TRACE[2024-11-16 16:07:19.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:19.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:19.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:19.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:19.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:19.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:19.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:19.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:19.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:19.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:19.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:19.734][private$loadEntries] Creating entries from ids [1]: "39424".
biodb.DEBUG[2024-11-16 16:07:19.735][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:19.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "39424".
biodb.TRACE[2024-11-16 16:07:19.737][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:19.738][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:19.739][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:19.740][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:19.741][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:19.741][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:19.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:19.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:19.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:19.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:19.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:19.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:19.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:19.760][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.DEBUG[2024-11-16 16:07:19.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:19.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:19.764][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.TRACE[2024-11-16 16:07:20.095][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424).
biodb.DEBUG[2024-11-16 16:07:20.426][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:20.427][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.content"
biodb.TRACE[2024-11-16 16:07:20.430][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.request"
biodb.TRACE[2024-11-16 16:07:20.432][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/39424.xml"
biodb.DEBUG[2024-11-16 16:07:20.433][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:20.434][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:20.435][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:20.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:20.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:20.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:20.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:20.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:20.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:20.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:20.446][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.447][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.453][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:20.454][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:20.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:20.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:20.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.459][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:20.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:20.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.462][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.463][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:20.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:20.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.466][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:20.467][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:20.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.468][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:20.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:20.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.472][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:20.473][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:20.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:20.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:20.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.479][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:20.480][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:20.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.481][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.482][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:20.483][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:20.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.484][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.485][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:20.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:20.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.488][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.489][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.494][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:20.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:20.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:20.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.500][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:20.501][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:20.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.502][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.503][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:20.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:20.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.506][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:20.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:20.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.508][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.509][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:20.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:20.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:20.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:20.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:20.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:20.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:20.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:20.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:20.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:20.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:20.542][self$createEntryFromContent] Accession numbers: 39424.
biodb.TRACE[2024-11-16 16:07:20.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:20.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:20.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:20.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:20.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:20.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:20.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:20.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:20.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:20.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:20.560][private$loadEntries] Creating entries from ids [1]: "81767".
biodb.DEBUG[2024-11-16 16:07:20.561][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:20.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "81767".
biodb.TRACE[2024-11-16 16:07:20.563][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:20.563][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:20.564][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:20.565][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:20.566][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:20.566][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:20.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:20.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:20.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:20.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:20.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:20.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:20.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:20.577][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.DEBUG[2024-11-16 16:07:20.579][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:20.580][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:20.581][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.TRACE[2024-11-16 16:07:20.914][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767).
biodb.DEBUG[2024-11-16 16:07:21.246][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:21.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.content"
biodb.TRACE[2024-11-16 16:07:21.250][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.request"
biodb.TRACE[2024-11-16 16:07:21.252][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/81767.xml"
biodb.DEBUG[2024-11-16 16:07:21.254][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:21.254][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:21.255][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:21.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.268][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.272][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:21.273][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:21.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:21.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:21.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.278][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:21.279][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:21.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:21.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:21.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:21.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:21.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.286][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:21.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:21.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.290][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:21.291][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:21.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.293][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:21.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:21.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:21.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.299][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.299][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:21.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:21.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.302][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:21.303][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:21.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.305][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.305][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:21.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:21.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.308][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.309][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.314][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:21.315][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:21.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.316][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.317][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:21.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:21.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:21.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:21.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.322][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.323][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:21.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:21.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:21.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:21.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.328][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.329][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:21.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:21.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:21.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.372][self$createEntryFromContent] Accession numbers: 81767.
biodb.TRACE[2024-11-16 16:07:21.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.398][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:21.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.414][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.415][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.416][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.418][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.422][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.424][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.424][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.425][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.426][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.427][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.437][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2024-11-16 16:07:21.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.452][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.453][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.453][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.454][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.458][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.462][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.463][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.465][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.465][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.475][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2024-11-16 16:07:21.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.491][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.492][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.493][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.500][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.500][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.502][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.503][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.504][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.513][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2024-11-16 16:07:21.514][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:21.515][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:21.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:21.542][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:21.544][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:21.545][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:07:21.546][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:21.547][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:07:21.549][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:21.551][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:21.552][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:07:21.553][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:21.554][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:07:21.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.614][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:21.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.630][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.630][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.631][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.632][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.635][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.636][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.639][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.642][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.643][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.652][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:07:21.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.667][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.668][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.668][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.669][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.670][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.675][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.676][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.677][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.678][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.678][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.680][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.680][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.690][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:07:21.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.705][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.706][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.707][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.711][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.715][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.719][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.728][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:07:21.729][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:21.730][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:21.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:21.741][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:21.743][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:21.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-11-16 16:07:21.745][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:21.746][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-11-16 16:07:21.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.801][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:21.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.818][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.818][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.819][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.822][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.827][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.830][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.840][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:21.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.861][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.862][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.862][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.863][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.866][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.869][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.870][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.870][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.873][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.874][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.883][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-11-16 16:07:21.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.898][private$selectFields]
biodb.TRACE[2024-11-16 16:07:21.899][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:21.900][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:21.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.902][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.906][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.907][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.907][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:21.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.910][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.911][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:21.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.920][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-11-16 16:07:21.921][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:21.922][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:21.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:21.934][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:21.936][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:21.937][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-11-16 16:07:21.938][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:21.939][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-11-16 16:07:21.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:21.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:21.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:21.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:21.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:21.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:21.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:21.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:21.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:21.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:21.997][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:21.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:21.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.014][private$selectFields]
biodb.TRACE[2024-11-16 16:07:22.015][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:22.015][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:22.016][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.017][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.017][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.019][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.022][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.023][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.026][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.026][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:22.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.036][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-11-16 16:07:22.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:22.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.052][private$selectFields]
biodb.TRACE[2024-11-16 16:07:22.052][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:22.053][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:22.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.055][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.057][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.060][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.061][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.064][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.065][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:22.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.074][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-11-16 16:07:22.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:22.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.090][private$selectFields]
biodb.TRACE[2024-11-16 16:07:22.091][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:22.091][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:22.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.095][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.103][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.104][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.105][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:22.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.106][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.108][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.108][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:22.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:22.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.118][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-11-16 16:07:22.119][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:22.119][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:22.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:22.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:22.148][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:22.149][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:22.150][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:07:22.481][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:07:22.815][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:22.817][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content"
biodb.TRACE[2024-11-16 16:07:22.820][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.request"
biodb.DEBUG[2024-11-16 16:07:22.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:22.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:22.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:22.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:22.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:22.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:22.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:22.866][private$loadEntries] Creating entries from ids [1]: "17813".
biodb.DEBUG[2024-11-16 16:07:22.866][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:22.867][cch$loadFileContent] Trying to load 1 files from cache: [1]: "17813".
biodb.TRACE[2024-11-16 16:07:22.868][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:22.869][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:22.870][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:22.871][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:22.871][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:22.872][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:22.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:22.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:22.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:22.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:22.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:22.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:22.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:22.882][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.DEBUG[2024-11-16 16:07:22.884][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:22.885][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:22.886][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.TRACE[2024-11-16 16:07:23.222][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813).
biodb.DEBUG[2024-11-16 16:07:23.556][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:23.557][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.content"
biodb.TRACE[2024-11-16 16:07:23.560][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.request"
biodb.TRACE[2024-11-16 16:07:23.562][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/17813.xml"
biodb.DEBUG[2024-11-16 16:07:23.564][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:23.565][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:23.565][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:23.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:23.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:23.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:23.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:23.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:23.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:23.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:23.576][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.583][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:23.584][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:23.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:23.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:23.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.589][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:23.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:23.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.592][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:23.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:23.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.595][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:23.596][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:23.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:23.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:23.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.601][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:23.602][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:23.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:23.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.607][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:23.608][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:23.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.609][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.610][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:23.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:23.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.613][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:23.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:23.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.615][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.616][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:23.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:23.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.619][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.620][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.621][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.625][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:23.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:23.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:23.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:23.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.632][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:23.633][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:23.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.634][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:23.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:23.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:23.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:23.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:23.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:23.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:23.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:23.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:23.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:23.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:23.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:23.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:23.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:23.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:23.675][self$createEntryFromContent] Accession numbers: 17813.
biodb.TRACE[2024-11-16 16:07:23.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:23.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:23.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:23.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:23.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:23.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:23.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:23.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:23.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:23.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:23.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:23.704][private$loadEntries] Creating entries from ids [1]: "30109".
biodb.DEBUG[2024-11-16 16:07:23.705][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:23.706][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30109".
biodb.TRACE[2024-11-16 16:07:23.707][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:23.708][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:23.709][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:23.710][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:23.710][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:23.711][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:23.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:23.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:23.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:23.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:23.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:23.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:23.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:23.721][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.DEBUG[2024-11-16 16:07:23.723][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:23.724][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:23.725][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.TRACE[2024-11-16 16:07:24.059][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109).
biodb.DEBUG[2024-11-16 16:07:24.389][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:24.390][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.content"
biodb.TRACE[2024-11-16 16:07:24.393][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.request"
biodb.TRACE[2024-11-16 16:07:24.395][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30109.xml"
biodb.DEBUG[2024-11-16 16:07:24.396][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:24.397][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:24.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:24.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:24.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:24.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:24.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:24.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:24.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:24.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:24.408][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.409][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.415][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:24.415][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:24.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.417][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:24.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:24.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.420][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:24.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:24.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.422][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.423][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:24.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:24.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:24.427][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:24.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.428][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:24.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:24.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.432][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:24.433][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:24.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.434][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:24.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:24.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.438][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:24.439][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:24.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.441][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:24.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:24.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.444][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:24.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:24.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.447][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:24.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:24.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.450][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.451][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.452][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.456][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:24.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:24.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.458][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:24.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:24.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.463][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:24.463][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:24.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.465][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:24.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:24.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:24.469][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:24.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.471][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:24.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:24.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:24.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:24.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:24.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:24.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:24.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:24.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:24.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:24.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:24.503][self$createEntryFromContent] Accession numbers: 30109.
biodb.TRACE[2024-11-16 16:07:24.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:24.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:24.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:24.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:24.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:24.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:24.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:24.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:24.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:24.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:24.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:24.522][private$loadEntries] Creating entries from ids [1]: "33275".
biodb.DEBUG[2024-11-16 16:07:24.523][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:24.524][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33275".
biodb.TRACE[2024-11-16 16:07:24.525][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:24.525][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:24.526][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:24.527][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:24.528][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:24.529][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:24.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:24.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:24.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:24.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:24.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:24.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:24.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:24.539][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.DEBUG[2024-11-16 16:07:24.541][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:24.541][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:24.542][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.TRACE[2024-11-16 16:07:24.873][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275).
biodb.DEBUG[2024-11-16 16:07:25.205][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:25.207][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.content"
biodb.TRACE[2024-11-16 16:07:25.210][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.request"
biodb.TRACE[2024-11-16 16:07:25.212][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33275.xml"
biodb.DEBUG[2024-11-16 16:07:25.213][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:25.214][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:25.215][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:25.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:25.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:25.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:25.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:25.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:25.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:25.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:25.225][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.228][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.232][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:25.233][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:25.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.234][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.235][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:25.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:25.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.238][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:25.239][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:25.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:25.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:25.245][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:25.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.246][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:25.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.250][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:25.251][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:25.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.252][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:25.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.256][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:25.257][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:25.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.258][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.259][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:25.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:25.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.262][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:25.263][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:25.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.270][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.275][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:25.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:25.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.279][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.285][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:25.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:25.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:25.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:25.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.291][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:25.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:25.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.293][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:25.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:25.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:25.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.299][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.300][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:25.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:25.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:25.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:25.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:25.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:25.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:25.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:25.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:25.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:25.332][self$createEntryFromContent] Accession numbers: 33275.
biodb.TRACE[2024-11-16 16:07:25.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:25.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:25.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:25.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:25.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:25.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:25.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:25.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:25.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:25.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:25.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:25.351][private$loadEntries] Creating entries from ids [1]: "33277".
biodb.DEBUG[2024-11-16 16:07:25.351][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:25.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33277".
biodb.TRACE[2024-11-16 16:07:25.353][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:25.354][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:25.355][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:25.356][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:25.356][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:25.357][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:25.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:25.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:25.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:25.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:25.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:25.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:25.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:25.367][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.DEBUG[2024-11-16 16:07:25.369][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:25.370][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:25.371][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.TRACE[2024-11-16 16:07:25.701][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277).
biodb.DEBUG[2024-11-16 16:07:26.033][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:26.034][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.content"
biodb.TRACE[2024-11-16 16:07:26.037][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.request"
biodb.TRACE[2024-11-16 16:07:26.039][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33277.xml"
biodb.DEBUG[2024-11-16 16:07:26.040][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:26.041][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:26.042][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:26.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:26.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:26.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:26.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:26.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:26.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:26.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:26.053][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.054][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.056][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.060][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:26.060][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:26.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.062][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.063][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:26.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.066][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:26.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:26.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.068][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:26.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:26.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.072][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:26.073][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:26.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.074][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:26.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:26.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.079][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.080][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.085][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:26.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:26.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.087][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:26.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:26.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.091][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:26.092][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:26.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.094][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.095][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:26.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:26.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.098][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.100][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.104][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:26.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:26.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.106][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:26.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:26.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.110][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:26.111][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:26.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:26.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:26.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.117][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:26.118][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:26.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.120][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:26.154][self$createEntryFromContent] Accession numbers: 33277.
biodb.TRACE[2024-11-16 16:07:26.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:26.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:26.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:26.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:26.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:26.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:26.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:26.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:26.173][private$loadEntries] Creating entries from ids [1]: "52421".
biodb.DEBUG[2024-11-16 16:07:26.174][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:26.176][cch$loadFileContent] Trying to load 1 files from cache: [1]: "52421".
biodb.TRACE[2024-11-16 16:07:26.177][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:26.177][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:26.178][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:26.179][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:26.180][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:26.181][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:26.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:26.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:26.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:26.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:26.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:26.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:26.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:26.200][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.DEBUG[2024-11-16 16:07:26.202][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:26.203][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:26.204][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.TRACE[2024-11-16 16:07:26.558][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421).
biodb.DEBUG[2024-11-16 16:07:26.893][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:26.894][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.content"
biodb.TRACE[2024-11-16 16:07:26.897][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.request"
biodb.TRACE[2024-11-16 16:07:26.899][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52421.xml"
biodb.DEBUG[2024-11-16 16:07:26.900][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:26.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:26.902][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:26.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:26.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:26.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:26.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:26.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:26.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:26.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:26.912][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.913][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.918][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:26.919][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:26.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.920][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:26.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:26.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.924][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:26.925][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:26.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:26.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:26.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.930][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:26.931][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:26.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:26.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:26.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.937][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.938][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:26.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.942][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:26.943][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:26.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.944][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.945][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:26.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:26.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.949][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:26.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:26.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.952][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:26.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.958][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:26.958][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:26.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:26.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:26.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:26.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:26.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:26.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.970][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:26.971][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:26.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.972][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:26.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:26.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:26.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:26.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:26.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:27.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:27.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:27.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:27.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:27.005][self$createEntryFromContent] Accession numbers: 52421.
biodb.TRACE[2024-11-16 16:07:27.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:27.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:27.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:27.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:27.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:27.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:27.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:27.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:27.032][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:27.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:27.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:27.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:27.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:27.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:27.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:27.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:27.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.048][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.048][private$selectFields]
biodb.TRACE[2024-11-16 16:07:27.049][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:27.050][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:27.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.054][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.055][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.057][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.058][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.059][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.061][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.062][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:27.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.072][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:07:27.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:27.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:27.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:27.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:27.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:27.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:27.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:27.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.088][private$selectFields]
biodb.TRACE[2024-11-16 16:07:27.089][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:27.090][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:27.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.096][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.097][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.098][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.101][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:27.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.111][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:07:27.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:27.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:27.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:27.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:27.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:27.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:27.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:27.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.134][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.135][private$selectFields]
biodb.TRACE[2024-11-16 16:07:27.136][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:27.136][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:27.137][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.140][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.141][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.144][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.144][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:27.145][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.148][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:27.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:27.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:27.157][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:07:27.158][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:27.158][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:27.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:27.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:27.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:27.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:27.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:27.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:27.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:27.170][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:27.172][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:27.173][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:27.174][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-16 16:07:27.516][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-16 16:07:28.240][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:28.242][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content"
biodb.TRACE[2024-11-16 16:07:28.245][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.request"
biodb.DEBUG[2024-11-16 16:07:28.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:28.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:28.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:28.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:28.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:28.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:28.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:28.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:28.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:28.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:28.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:28.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:28.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:28.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:28.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:28.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:28.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:28.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:28.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:28.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:28.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:28.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:28.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:28.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:28.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:28.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:28.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:28.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:28.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:28.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:28.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:28.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:28.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:28.293][private$loadEntries] Creating entries from ids [1]: "65567".
biodb.DEBUG[2024-11-16 16:07:28.294][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:28.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65567".
biodb.TRACE[2024-11-16 16:07:28.296][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:28.297][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:28.297][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:28.298][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:28.299][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:28.300][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:28.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:28.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:28.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:28.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:28.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:28.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:28.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:28.310][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.DEBUG[2024-11-16 16:07:28.312][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:28.313][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:28.314][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.TRACE[2024-11-16 16:07:28.645][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567).
biodb.DEBUG[2024-11-16 16:07:28.976][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:28.978][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.content"
biodb.TRACE[2024-11-16 16:07:28.981][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.request"
biodb.TRACE[2024-11-16 16:07:28.983][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65567.xml"
biodb.DEBUG[2024-11-16 16:07:28.985][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:28.986][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:28.987][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:28.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:28.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:28.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:28.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:28.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:28.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:28.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:28.998][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:28.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:28.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.004][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:29.004][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:29.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.006][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:29.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:29.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.009][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:29.010][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:29.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.012][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.012][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:29.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:29.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.015][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:29.016][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:29.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.017][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:29.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:29.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.021][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.022][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.023][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.027][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:29.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:29.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.029][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.030][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:29.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:29.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.032][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.033][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:29.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:29.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.037][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.038][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.042][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:29.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:29.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.044][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:29.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:29.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.048][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:29.048][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:29.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.050][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:29.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:29.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.053][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:29.054][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:29.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.056][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:29.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:29.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:29.088][self$createEntryFromContent] Accession numbers: 65567.
biodb.TRACE[2024-11-16 16:07:29.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:29.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:29.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:29.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:29.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:29.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:29.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:29.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:29.118][private$loadEntries] Creating entries from ids [1]: "65576".
biodb.DEBUG[2024-11-16 16:07:29.118][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:29.120][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65576".
biodb.TRACE[2024-11-16 16:07:29.120][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:29.121][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:29.122][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:29.123][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:29.124][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:29.124][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:29.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:29.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:29.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:29.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:29.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:29.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:29.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:29.134][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.DEBUG[2024-11-16 16:07:29.136][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:29.137][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:29.138][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.TRACE[2024-11-16 16:07:29.470][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576).
biodb.DEBUG[2024-11-16 16:07:29.803][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:29.805][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.content"
biodb.TRACE[2024-11-16 16:07:29.807][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.request"
biodb.TRACE[2024-11-16 16:07:29.809][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65576.xml"
biodb.DEBUG[2024-11-16 16:07:29.810][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:29.811][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:29.812][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:29.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:29.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:29.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:29.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:29.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:29.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:29.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:29.822][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.828][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:29.829][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:29.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.831][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:29.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:29.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.834][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:29.835][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:29.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:29.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:29.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:29.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:29.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:29.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:29.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.847][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.848][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.853][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:29.854][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:29.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.856][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:29.857][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:29.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.858][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.862][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.863][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.864][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.868][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:29.868][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:29.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:29.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:29.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.874][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:29.874][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:29.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.876][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.877][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:29.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:29.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:29.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.881][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:29.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:29.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:29.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:29.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:29.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:29.914][self$createEntryFromContent] Accession numbers: 65576.
biodb.TRACE[2024-11-16 16:07:29.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:29.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:29.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:29.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:29.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:29.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:29.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:29.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:29.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:29.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:29.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:29.932][private$loadEntries] Creating entries from ids [1]: "66352".
biodb.DEBUG[2024-11-16 16:07:29.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:29.934][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66352".
biodb.TRACE[2024-11-16 16:07:29.935][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:29.936][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:29.937][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:29.937][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:29.938][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:29.939][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:29.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:29.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:29.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:29.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:29.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:29.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:29.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:29.949][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.DEBUG[2024-11-16 16:07:29.951][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:29.952][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:29.953][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.TRACE[2024-11-16 16:07:30.285][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352).
biodb.DEBUG[2024-11-16 16:07:30.614][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:30.616][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.content"
biodb.TRACE[2024-11-16 16:07:30.619][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.request"
biodb.TRACE[2024-11-16 16:07:30.621][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66352.xml"
biodb.DEBUG[2024-11-16 16:07:30.622][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:30.623][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:30.624][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:30.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:30.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:30.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:30.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:30.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:30.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:30.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:30.635][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.635][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.637][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.641][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:30.642][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:30.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:30.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:30.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.648][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:30.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:30.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.651][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:30.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:30.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:30.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:30.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:30.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.662][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:30.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:30.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.666][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:30.667][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:30.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.668][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.669][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:30.670][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:30.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.672][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:30.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:30.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.693][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:30.694][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:30.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.695][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:30.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:30.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.699][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:30.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:30.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.702][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:30.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.706][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:30.706][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:30.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.709][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:30.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:30.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:30.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:30.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:30.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:30.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:30.743][self$createEntryFromContent] Accession numbers: 66352.
biodb.TRACE[2024-11-16 16:07:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:30.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:30.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:30.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:30.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:30.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:30.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:30.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:30.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:30.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:30.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:30.760][private$loadEntries] Creating entries from ids [1]: "67567".
biodb.DEBUG[2024-11-16 16:07:30.761][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:30.762][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67567".
biodb.TRACE[2024-11-16 16:07:30.763][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:30.764][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:30.765][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:30.765][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:30.766][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:30.767][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:30.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:30.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:30.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:30.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:30.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:30.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:30.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:30.778][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.DEBUG[2024-11-16 16:07:30.780][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:30.781][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:30.782][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.TRACE[2024-11-16 16:07:31.116][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567).
biodb.DEBUG[2024-11-16 16:07:31.447][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:31.449][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.content"
biodb.TRACE[2024-11-16 16:07:31.451][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.request"
biodb.TRACE[2024-11-16 16:07:31.453][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67567.xml"
biodb.DEBUG[2024-11-16 16:07:31.454][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:31.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:31.456][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:31.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:31.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:31.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:31.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:31.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:31.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:31.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:31.468][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.469][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.471][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.475][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:31.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:31.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.478][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.479][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:31.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:31.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.482][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:31.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:31.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:31.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:31.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.489][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:31.490][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:31.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.491][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:31.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:31.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.495][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:31.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:31.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.497][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:31.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:31.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.501][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:31.502][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:31.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.505][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:31.505][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:31.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:31.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:31.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.511][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.512][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.517][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:31.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:31.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.519][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.523][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:31.528][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:31.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.529][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.530][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:31.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.533][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:31.534][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:31.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.535][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.536][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:31.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:31.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:31.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:31.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:31.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:31.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:31.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:31.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:31.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:31.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:31.568][self$createEntryFromContent] Accession numbers: 67567.
biodb.TRACE[2024-11-16 16:07:31.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:31.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:31.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:31.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:31.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:31.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:31.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:31.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:31.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:31.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:31.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:31.586][private$loadEntries] Creating entries from ids [1]: "67693".
biodb.DEBUG[2024-11-16 16:07:31.587][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:31.588][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67693".
biodb.TRACE[2024-11-16 16:07:31.589][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:31.590][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:31.590][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:31.591][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:31.592][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:31.593][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:31.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:31.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:31.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:31.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:31.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:31.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:31.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:31.604][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.DEBUG[2024-11-16 16:07:31.605][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:31.606][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:31.607][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.TRACE[2024-11-16 16:07:31.947][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693).
biodb.DEBUG[2024-11-16 16:07:32.277][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:32.278][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.content"
biodb.TRACE[2024-11-16 16:07:32.281][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.request"
biodb.TRACE[2024-11-16 16:07:32.283][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67693.xml"
biodb.DEBUG[2024-11-16 16:07:32.284][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:32.285][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:32.286][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:32.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:32.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:32.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:32.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:32.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:32.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:32.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:32.296][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.297][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.303][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:32.303][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:32.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.305][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.306][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:32.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:32.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.308][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:32.309][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:32.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:32.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:32.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:32.315][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:32.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.316][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:32.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:32.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:32.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:32.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.322][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:32.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:32.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:32.326][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:32.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.328][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.329][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:32.329][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:32.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.331][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.332][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:32.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:32.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.335][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.337][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.340][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:32.341][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:32.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.342][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:32.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:32.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:32.347][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:32.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.349][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.350][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:32.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:32.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:32.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:32.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.355][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:32.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:32.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:32.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:32.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:32.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:32.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:32.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:32.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:32.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:32.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:32.388][self$createEntryFromContent] Accession numbers: 67693.
biodb.TRACE[2024-11-16 16:07:32.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:32.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:32.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:32.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:32.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:32.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:32.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:32.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:32.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:32.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:32.406][private$loadEntries] Creating entries from ids [1]: "67700".
biodb.DEBUG[2024-11-16 16:07:32.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:32.407][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67700".
biodb.TRACE[2024-11-16 16:07:32.408][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:32.409][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:32.410][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:32.411][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:32.411][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:32.412][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:32.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:32.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:32.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:32.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:32.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:32.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:32.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:32.423][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.DEBUG[2024-11-16 16:07:32.425][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:32.425][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:32.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.TRACE[2024-11-16 16:07:32.756][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700).
biodb.DEBUG[2024-11-16 16:07:33.098][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:33.099][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.content"
biodb.TRACE[2024-11-16 16:07:33.102][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.request"
biodb.TRACE[2024-11-16 16:07:33.104][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67700.xml"
biodb.DEBUG[2024-11-16 16:07:33.105][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:33.106][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:33.107][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:33.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:33.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:33.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:33.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:33.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:33.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:33.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:33.118][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.119][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.125][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:33.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:33.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.127][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.128][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:33.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:33.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.130][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:33.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:33.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.133][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.133][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:33.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.136][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:33.137][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:33.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.138][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:33.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.143][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.144][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.148][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:33.149][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:33.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.151][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:33.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:33.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.153][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.154][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:33.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:33.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.157][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.159][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.162][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:33.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:33.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.164][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:33.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:33.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:33.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:33.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.171][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:33.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:33.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.174][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:33.175][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:33.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:33.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:33.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:33.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:33.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:33.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:33.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:33.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:33.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:33.218][self$createEntryFromContent] Accession numbers: 67700.
biodb.TRACE[2024-11-16 16:07:33.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:33.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:33.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:33.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:33.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:33.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:33.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:33.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:33.236][private$loadEntries] Creating entries from ids [1]: "67701".
biodb.DEBUG[2024-11-16 16:07:33.236][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:33.238][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67701".
biodb.TRACE[2024-11-16 16:07:33.238][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:33.239][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:33.240][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:33.241][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:33.241][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:33.242][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:33.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:33.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:33.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:33.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:33.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:33.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:33.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:33.252][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.DEBUG[2024-11-16 16:07:33.254][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:33.255][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:33.256][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.TRACE[2024-11-16 16:07:33.586][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701).
biodb.DEBUG[2024-11-16 16:07:33.917][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:33.919][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.content"
biodb.TRACE[2024-11-16 16:07:33.922][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.request"
biodb.TRACE[2024-11-16 16:07:33.924][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67701.xml"
biodb.DEBUG[2024-11-16 16:07:33.925][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:33.926][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:33.927][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:33.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:33.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:33.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:33.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:33.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:33.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:33.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:33.938][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.940][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:33.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:33.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.944][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:33.945][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:33.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.946][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.947][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:33.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.950][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:33.951][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:33.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.952][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:33.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.956][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:33.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:33.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.959][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:33.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:33.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.965][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:33.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:33.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:33.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.971][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.972][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:33.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:33.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.975][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:33.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:33.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.978][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.979][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.984][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:33.985][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:33.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.987][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:33.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:33.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.991][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:33.991][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:33.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.993][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:33.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:33.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:33.998][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:33.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:34.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:34.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:34.034][self$createEntryFromContent] Accession numbers: 67701.
biodb.TRACE[2024-11-16 16:07:34.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:34.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:34.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:34.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:34.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:34.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:34.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:34.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:34.053][private$loadEntries] Creating entries from ids [1]: "67705".
biodb.DEBUG[2024-11-16 16:07:34.054][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:34.055][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67705".
biodb.TRACE[2024-11-16 16:07:34.056][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:34.057][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:34.058][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:34.059][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:34.059][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:34.060][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:34.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:34.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:34.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:34.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:34.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:34.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:34.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:34.071][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.DEBUG[2024-11-16 16:07:34.073][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:34.074][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:34.075][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.TRACE[2024-11-16 16:07:34.406][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705).
biodb.DEBUG[2024-11-16 16:07:34.760][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:34.762][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.content"
biodb.TRACE[2024-11-16 16:07:34.764][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.request"
biodb.TRACE[2024-11-16 16:07:34.766][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67705.xml"
biodb.DEBUG[2024-11-16 16:07:34.767][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:34.768][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:34.769][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:34.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:34.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:34.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:34.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:34.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:34.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:34.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:34.780][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.782][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.796][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:34.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:34.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.799][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:34.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:34.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.802][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:34.803][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:34.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.805][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:34.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:34.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:34.809][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:34.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:34.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:34.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.814][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:34.815][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:34.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.816][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:34.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:34.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.820][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:34.821][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:34.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.822][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.823][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:34.823][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:34.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.826][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:34.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:34.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.828][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.829][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.834][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:34.835][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:34.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:34.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:34.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.841][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:34.841][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:34.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.844][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:34.847][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:34.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:34.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:34.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:34.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:34.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:34.881][self$createEntryFromContent] Accession numbers: 67705.
biodb.TRACE[2024-11-16 16:07:34.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:34.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:34.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:34.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:34.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:34.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:34.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:34.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:34.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:34.899][private$loadEntries] Creating entries from ids [1]: "75265".
biodb.DEBUG[2024-11-16 16:07:34.900][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:34.901][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75265".
biodb.TRACE[2024-11-16 16:07:34.902][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:34.903][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:34.904][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:34.904][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:34.905][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:34.906][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:34.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:34.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:34.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:34.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:34.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:34.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:34.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:34.916][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.DEBUG[2024-11-16 16:07:34.918][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:34.919][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:34.920][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.TRACE[2024-11-16 16:07:35.258][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265).
biodb.DEBUG[2024-11-16 16:07:35.589][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:35.590][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.content"
biodb.TRACE[2024-11-16 16:07:35.593][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.request"
biodb.TRACE[2024-11-16 16:07:35.595][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75265.xml"
biodb.DEBUG[2024-11-16 16:07:35.596][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:35.597][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:35.598][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:35.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:35.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:35.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:35.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:35.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:35.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:35.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:35.608][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.614][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:35.615][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:35.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.617][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.617][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:35.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:35.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.620][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:35.621][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:35.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.622][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:35.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:35.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:35.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:35.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.629][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.629][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:35.630][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:35.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.632][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.633][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:35.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:35.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.635][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.636][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:35.636][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:35.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.639][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:35.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:35.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.642][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.643][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.648][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:35.648][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:35.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:35.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:35.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.654][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:35.654][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:35.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.657][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:35.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:35.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:35.660][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:35.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.662][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.662][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:35.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:35.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:35.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:35.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:35.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:35.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:35.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:35.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:35.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:35.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:35.694][self$createEntryFromContent] Accession numbers: 75265.
biodb.TRACE[2024-11-16 16:07:35.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:35.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:35.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:35.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:35.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:35.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:35.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:35.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:35.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:35.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:35.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:35.720][private$loadEntries] Creating entries from ids [1]: "77370".
biodb.DEBUG[2024-11-16 16:07:35.721][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:35.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77370".
biodb.TRACE[2024-11-16 16:07:35.723][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:35.724][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:35.725][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:35.725][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:35.726][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:35.727][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:35.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:35.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:35.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:35.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:35.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:35.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:35.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:35.737][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.DEBUG[2024-11-16 16:07:35.739][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:35.740][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:35.741][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.TRACE[2024-11-16 16:07:36.071][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370).
biodb.DEBUG[2024-11-16 16:07:36.403][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:36.404][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.content"
biodb.TRACE[2024-11-16 16:07:36.407][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.request"
biodb.TRACE[2024-11-16 16:07:36.409][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77370.xml"
biodb.DEBUG[2024-11-16 16:07:36.410][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:36.411][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:36.412][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:36.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:36.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:36.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:36.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:36.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:36.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:36.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:36.422][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.424][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.428][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:36.429][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:36.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.430][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:36.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:36.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.434][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:36.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:36.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.436][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:36.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:36.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.440][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:36.441][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:36.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.442][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.443][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:36.443][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:36.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.445][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:36.446][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:36.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.448][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.449][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:36.449][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:36.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.451][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.456][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.460][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:36.461][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:36.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.462][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:36.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:36.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:36.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:36.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.468][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.469][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:36.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:36.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.472][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:36.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:36.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.474][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.475][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:36.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:36.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:36.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:36.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:36.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:36.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:36.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:36.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:36.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:36.506][self$createEntryFromContent] Accession numbers: 77370.
biodb.TRACE[2024-11-16 16:07:36.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:36.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:36.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:36.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:36.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:36.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:36.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:36.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:36.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:36.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:36.523][private$loadEntries] Creating entries from ids [1]: "79074".
biodb.DEBUG[2024-11-16 16:07:36.524][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:36.525][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79074".
biodb.TRACE[2024-11-16 16:07:36.526][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:36.527][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:36.528][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:36.529][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:36.529][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:36.530][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:36.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:36.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:36.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:36.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:36.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:36.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:36.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:36.540][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.DEBUG[2024-11-16 16:07:36.542][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:36.543][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:36.544][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.TRACE[2024-11-16 16:07:36.873][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074).
biodb.DEBUG[2024-11-16 16:07:37.203][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:37.205][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.content"
biodb.TRACE[2024-11-16 16:07:37.208][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.request"
biodb.TRACE[2024-11-16 16:07:37.210][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79074.xml"
biodb.DEBUG[2024-11-16 16:07:37.211][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:37.212][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:37.213][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:37.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:37.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:37.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:37.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:37.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:37.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:37.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:37.224][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.225][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.230][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:37.231][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:37.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:37.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:37.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.236][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:37.237][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:37.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.238][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:37.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:37.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:37.243][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:37.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:37.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:37.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.248][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:37.249][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:37.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:37.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.254][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:37.255][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:37.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.257][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:37.258][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:37.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.260][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:37.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:37.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.269][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.275][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.281][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:37.281][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:37.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:37.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:37.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.287][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:37.288][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:37.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.289][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.290][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:37.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.293][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:37.294][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:37.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:37.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:37.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:37.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:37.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:37.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:37.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:37.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:37.327][self$createEntryFromContent] Accession numbers: 79074.
biodb.TRACE[2024-11-16 16:07:37.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:37.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:37.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:37.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:37.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:37.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:37.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:37.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:37.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:37.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:37.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:37.346][private$loadEntries] Creating entries from ids [1]: "79302".
biodb.DEBUG[2024-11-16 16:07:37.346][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:37.348][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79302".
biodb.TRACE[2024-11-16 16:07:37.348][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:37.349][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:37.350][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:37.351][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:37.351][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:37.352][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:37.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:37.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:37.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:37.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:37.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:37.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:37.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:37.363][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.DEBUG[2024-11-16 16:07:37.365][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:37.366][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:37.367][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.TRACE[2024-11-16 16:07:37.698][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302).
biodb.DEBUG[2024-11-16 16:07:38.030][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:38.032][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.content"
biodb.TRACE[2024-11-16 16:07:38.035][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.request"
biodb.TRACE[2024-11-16 16:07:38.037][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79302.xml"
biodb.DEBUG[2024-11-16 16:07:38.038][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:38.039][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:38.040][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:38.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:38.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:38.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:38.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:38.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:38.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:38.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:38.050][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.052][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.056][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:38.057][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:38.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.059][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:38.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:38.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.063][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:38.063][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:38.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.065][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.066][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:38.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:38.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.069][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:38.069][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:38.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.071][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:38.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:38.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.074][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:38.075][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:38.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.077][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:38.081][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:38.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.083][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.083][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:38.084][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:38.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.086][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.086][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:38.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:38.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.092][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.095][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:38.096][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:38.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.097][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:38.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:38.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.101][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:38.102][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:38.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.103][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.107][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:38.108][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:38.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.109][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:38.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:38.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:38.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:38.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:38.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:38.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:38.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:38.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:38.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:38.142][self$createEntryFromContent] Accession numbers: 79302.
biodb.TRACE[2024-11-16 16:07:38.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:38.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:38.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:38.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:38.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:38.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:38.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:38.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:38.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:38.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:38.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:38.159][private$loadEntries] Creating entries from ids [1]: "84164".
biodb.DEBUG[2024-11-16 16:07:38.160][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:38.161][cch$loadFileContent] Trying to load 1 files from cache: [1]: "84164".
biodb.TRACE[2024-11-16 16:07:38.162][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:38.163][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:38.164][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:38.164][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:38.165][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:38.166][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:38.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:38.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:38.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:38.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:38.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:38.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:38.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:38.184][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.DEBUG[2024-11-16 16:07:38.186][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:38.187][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:38.188][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.TRACE[2024-11-16 16:07:38.521][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164).
biodb.DEBUG[2024-11-16 16:07:39.091][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:39.093][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.content"
biodb.TRACE[2024-11-16 16:07:39.096][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.request"
biodb.TRACE[2024-11-16 16:07:39.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/84164.xml"
biodb.DEBUG[2024-11-16 16:07:39.099][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:39.100][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:39.100][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:39.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:39.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:39.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:39.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:39.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:39.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:39.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:39.111][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.117][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:39.117][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:39.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.120][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:39.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:39.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.123][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:39.123][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:39.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.125][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.126][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:39.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:39.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:39.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:39.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.130][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:39.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:39.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.134][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:39.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:39.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.142][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.143][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:39.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:39.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.145][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.146][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:39.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:39.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.151][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.155][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:39.156][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:39.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.157][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:39.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:39.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.161][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:39.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:39.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.164][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.164][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:39.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:39.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.167][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:39.168][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:39.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.171][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:39.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:39.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:39.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:39.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:39.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:39.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:39.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:39.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:39.203][self$createEntryFromContent] Accession numbers: 84164.
biodb.TRACE[2024-11-16 16:07:39.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:39.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:39.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:39.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:39.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:39.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:39.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:39.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:39.222][private$loadEntries] Creating entries from ids [1]: "132314".
biodb.DEBUG[2024-11-16 16:07:39.223][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:39.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132314".
biodb.TRACE[2024-11-16 16:07:39.225][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:39.226][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:39.226][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:39.227][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:39.228][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:39.229][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:39.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:39.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:39.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:39.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:39.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:39.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:39.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:39.240][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.DEBUG[2024-11-16 16:07:39.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:39.242][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:39.243][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.TRACE[2024-11-16 16:07:39.601][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314).
biodb.DEBUG[2024-11-16 16:07:39.933][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:39.934][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.content"
biodb.TRACE[2024-11-16 16:07:39.937][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.request"
biodb.TRACE[2024-11-16 16:07:39.939][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132314.xml"
biodb.DEBUG[2024-11-16 16:07:39.940][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:39.941][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:39.942][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:39.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:39.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:39.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:39.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:39.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:39.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:39.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:39.952][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:39.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:39.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.959][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:39.960][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:39.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.961][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.962][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:39.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:39.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.965][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:39.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:39.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.967][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:39.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:39.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.971][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:39.972][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:39.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:39.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:39.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.977][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.979][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.983][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:39.984][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:39.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.985][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.986][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:39.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:39.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.988][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.989][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.992][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.992][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.994][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:39.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:39.998][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:39.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:39.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:40.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:40.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.004][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:40.004][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:40.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.006][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:40.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:40.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.009][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:40.010][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:40.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.011][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:40.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:40.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:40.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:40.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:40.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:40.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:40.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:40.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:40.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:40.054][self$createEntryFromContent] Accession numbers: 132314.
biodb.TRACE[2024-11-16 16:07:40.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:40.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:40.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:40.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:40.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:40.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:40.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:40.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:40.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:40.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:40.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:40.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:40.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:40.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:40.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:40.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:40.072][private$loadEntries] Creating entries from ids [1]: "132338".
biodb.DEBUG[2024-11-16 16:07:40.073][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:40.074][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132338".
biodb.TRACE[2024-11-16 16:07:40.075][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:40.075][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:40.076][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:40.077][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:40.078][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:40.078][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:40.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:40.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:40.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:40.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:40.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:40.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:40.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:40.089][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.DEBUG[2024-11-16 16:07:40.091][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:40.092][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:40.093][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.TRACE[2024-11-16 16:07:40.662][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338).
biodb.DEBUG[2024-11-16 16:07:40.991][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:40.993][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.content"
biodb.TRACE[2024-11-16 16:07:40.996][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.request"
biodb.TRACE[2024-11-16 16:07:40.998][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132338.xml"
biodb.DEBUG[2024-11-16 16:07:40.999][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:41.000][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:41.001][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:41.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:41.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:41.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:41.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:41.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:41.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:41.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:41.012][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.012][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.014][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.018][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:41.018][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:41.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.020][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.021][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:41.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:41.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.024][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:41.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:41.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.026][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:41.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:41.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.030][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:41.030][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:41.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.032][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:41.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:41.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.037][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.038][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.039][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.043][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:41.044][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:41.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.045][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.046][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:41.047][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:41.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.048][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.049][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:41.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.054][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.058][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:41.058][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:41.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.060][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:41.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:41.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.063][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:41.064][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:41.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.066][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:41.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:41.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:41.070][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:41.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.071][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:41.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:41.103][self$createEntryFromContent] Accession numbers: 132338.
biodb.TRACE[2024-11-16 16:07:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:41.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:41.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:41.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:41.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:41.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:41.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:41.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:41.121][private$loadEntries] Creating entries from ids [1]: "139019".
biodb.DEBUG[2024-11-16 16:07:41.122][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:41.123][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139019".
biodb.TRACE[2024-11-16 16:07:41.124][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:41.125][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:41.126][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:41.127][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:41.127][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:41.128][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:41.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:41.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:41.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:41.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:41.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:41.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:41.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:41.139][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.DEBUG[2024-11-16 16:07:41.141][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:41.141][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:41.142][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.TRACE[2024-11-16 16:07:41.472][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019).
biodb.DEBUG[2024-11-16 16:07:41.803][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:41.805][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.content"
biodb.TRACE[2024-11-16 16:07:41.808][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.request"
biodb.TRACE[2024-11-16 16:07:41.810][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139019.xml"
biodb.DEBUG[2024-11-16 16:07:41.811][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:41.812][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:41.813][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:41.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:41.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:41.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:41.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:41.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:41.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:41.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:41.839][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.840][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.841][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.845][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:41.846][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:41.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.847][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.848][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:41.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:41.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.851][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:41.852][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:41.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.853][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:41.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.857][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:41.857][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:41.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.859][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:41.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:41.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.862][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.863][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.864][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:41.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.868][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:41.869][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:41.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.871][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.872][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:41.872][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:41.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.874][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:41.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:41.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.879][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.884][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:41.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:41.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.886][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:41.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:41.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.890][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:41.891][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:41.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:41.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:41.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.896][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:41.897][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:41.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.898][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:41.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:41.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:41.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:41.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:41.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:41.933][self$createEntryFromContent] Accession numbers: 139019.
biodb.TRACE[2024-11-16 16:07:41.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:41.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:41.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:41.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:41.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:41.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:41.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:41.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:41.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:41.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:41.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:41.951][private$loadEntries] Creating entries from ids [1]: "139367".
biodb.DEBUG[2024-11-16 16:07:41.952][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:41.953][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139367".
biodb.TRACE[2024-11-16 16:07:41.954][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:41.955][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:41.956][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:41.956][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:41.957][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:41.958][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:41.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:41.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:41.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:41.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:41.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:41.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:41.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:41.969][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.DEBUG[2024-11-16 16:07:41.971][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:41.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:41.972][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.TRACE[2024-11-16 16:07:42.303][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367).
biodb.DEBUG[2024-11-16 16:07:42.652][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:42.654][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.content"
biodb.TRACE[2024-11-16 16:07:42.657][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.request"
biodb.TRACE[2024-11-16 16:07:42.659][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139367.xml"
biodb.DEBUG[2024-11-16 16:07:42.660][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:42.661][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:42.662][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:42.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:42.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:42.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:42.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:42.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:42.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:42.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:42.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.673][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.675][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.679][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:42.679][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:42.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.682][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:42.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:42.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.685][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:42.686][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:42.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.687][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:42.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:42.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:42.691][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:42.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:42.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.697][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:42.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:42.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.699][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:42.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.703][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:42.704][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:42.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.706][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:42.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:42.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.709][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:42.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:42.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.718][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:42.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:42.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.720][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.724][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:42.725][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:42.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:42.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.730][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:42.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:42.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.732][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:42.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:42.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:42.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:42.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:42.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:42.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:42.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:42.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:42.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:42.774][self$createEntryFromContent] Accession numbers: 139367.
biodb.TRACE[2024-11-16 16:07:42.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:42.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:42.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:42.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:42.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:42.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:42.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:42.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:42.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:42.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:42.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:42.792][private$loadEntries] Creating entries from ids [1]: "145029".
biodb.DEBUG[2024-11-16 16:07:42.793][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:42.794][cch$loadFileContent] Trying to load 1 files from cache: [1]: "145029".
biodb.TRACE[2024-11-16 16:07:42.795][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:42.796][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:42.797][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:42.798][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:42.798][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:42.799][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:42.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:42.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:42.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:42.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:42.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:42.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:42.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:42.809][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.DEBUG[2024-11-16 16:07:42.811][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:42.812][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:42.813][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.TRACE[2024-11-16 16:07:43.143][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029).
biodb.DEBUG[2024-11-16 16:07:43.550][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:43.552][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.content"
biodb.TRACE[2024-11-16 16:07:43.555][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.request"
biodb.TRACE[2024-11-16 16:07:43.557][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/145029.xml"
biodb.DEBUG[2024-11-16 16:07:43.558][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:43.559][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:43.560][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:43.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:43.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:43.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:43.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:43.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:43.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:43.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:43.570][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.571][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.576][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:43.577][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:43.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.580][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:43.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:43.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.582][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:43.583][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:43.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:43.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:43.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.589][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:43.590][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:43.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:43.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:43.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.595][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:43.596][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:43.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:43.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:43.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.601][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:43.602][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:43.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.604][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:43.605][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:43.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.607][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.608][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:43.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.617][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:43.618][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:43.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.619][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:43.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:43.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.623][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:43.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:43.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.626][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.627][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:43.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:43.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.630][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:43.630][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:43.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.632][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.633][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:43.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:43.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:43.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:43.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:43.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:43.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:43.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:43.667][self$createEntryFromContent] Accession numbers: 145029.
biodb.TRACE[2024-11-16 16:07:43.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:43.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:43.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:43.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:43.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:43.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:43.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:43.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:43.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:43.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:43.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:43.685][private$loadEntries] Creating entries from ids [1]: "173077".
biodb.DEBUG[2024-11-16 16:07:43.685][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:43.687][cch$loadFileContent] Trying to load 1 files from cache: [1]: "173077".
biodb.TRACE[2024-11-16 16:07:43.688][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:43.688][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:43.689][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:43.690][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:43.691][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:43.692][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:43.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:43.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:43.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:43.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:43.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:43.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:43.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:43.703][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.DEBUG[2024-11-16 16:07:43.705][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:43.705][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:43.706][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.TRACE[2024-11-16 16:07:44.037][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077).
biodb.DEBUG[2024-11-16 16:07:44.450][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:44.452][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.content"
biodb.TRACE[2024-11-16 16:07:44.455][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.request"
biodb.TRACE[2024-11-16 16:07:44.457][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/173077.xml"
biodb.DEBUG[2024-11-16 16:07:44.458][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:44.459][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:44.460][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:44.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:44.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:44.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:44.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:44.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:44.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:44.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:44.471][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.477][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:44.478][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:44.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.479][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:44.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:44.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.483][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:44.484][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:44.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:44.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:44.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.489][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:44.490][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:44.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.491][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:44.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:44.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.505][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:44.506][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:44.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.508][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:44.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.511][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:44.512][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:44.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.515][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:44.516][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:44.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.518][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:44.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.521][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.522][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.523][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.527][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:44.528][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:44.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.529][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:44.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:44.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.533][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:44.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:44.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.535][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.536][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:44.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:44.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.539][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:44.540][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:44.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.542][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:44.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:44.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:44.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:44.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:44.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:44.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:44.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:44.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:44.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:44.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:44.573][self$createEntryFromContent] Accession numbers: 173077.
biodb.TRACE[2024-11-16 16:07:44.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:44.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:44.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:44.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:44.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:44.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:44.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:44.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:44.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:44.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:44.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:44.592][private$loadEntries] Creating entries from ids [1]: "365445".
biodb.DEBUG[2024-11-16 16:07:44.592][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:44.593][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365445".
biodb.TRACE[2024-11-16 16:07:44.594][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:44.595][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:44.596][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:44.597][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:44.598][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:44.598][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:44.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:44.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:44.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:44.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:44.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:44.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:44.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:44.609][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.DEBUG[2024-11-16 16:07:44.611][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:44.611][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:44.612][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.TRACE[2024-11-16 16:07:44.945][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445).
biodb.DEBUG[2024-11-16 16:07:45.305][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:45.307][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.content"
biodb.TRACE[2024-11-16 16:07:45.309][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.request"
biodb.TRACE[2024-11-16 16:07:45.311][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365445.xml"
biodb.DEBUG[2024-11-16 16:07:45.312][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:45.313][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:45.314][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:45.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:45.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:45.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:45.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:45.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:45.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:45.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:45.325][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.326][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.328][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.332][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:45.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:45.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.334][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.335][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:45.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.338][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:45.339][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:45.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.340][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.341][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:45.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:45.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.344][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:45.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:45.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.346][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:45.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:45.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.350][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:45.350][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:45.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.352][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:45.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:45.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:45.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:45.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.358][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.359][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:45.359][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:45.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.362][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.365][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.367][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.371][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:45.372][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:45.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.373][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:45.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.377][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:45.378][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:45.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.380][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:45.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:45.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.383][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:45.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:45.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.385][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:45.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:45.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:45.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:45.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:45.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:45.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:45.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:45.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:45.418][self$createEntryFromContent] Accession numbers: 365445.
biodb.TRACE[2024-11-16 16:07:45.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:45.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:45.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:45.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:45.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:45.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:45.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:45.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:45.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:45.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:45.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:45.444][private$loadEntries] Creating entries from ids [1]: "32151".
biodb.DEBUG[2024-11-16 16:07:45.445][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:45.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "32151".
biodb.TRACE[2024-11-16 16:07:45.448][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:45.449][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:45.449][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:45.450][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:45.451][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:45.452][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:45.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:45.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:45.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:45.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:45.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:45.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:45.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:45.463][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.DEBUG[2024-11-16 16:07:45.465][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:45.465][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:45.466][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.TRACE[2024-11-16 16:07:45.797][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151).
biodb.DEBUG[2024-11-16 16:07:46.125][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:46.127][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.content"
biodb.TRACE[2024-11-16 16:07:46.130][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.request"
biodb.TRACE[2024-11-16 16:07:46.132][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32151.xml"
biodb.DEBUG[2024-11-16 16:07:46.133][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:46.134][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:46.135][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:46.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:46.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:46.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:46.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:46.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:46.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:46.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:46.146][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.148][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.152][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:46.153][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:46.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:46.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:46.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.158][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:46.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:46.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.160][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.164][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:46.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:46.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.167][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:46.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.171][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:46.172][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:46.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:46.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:46.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.177][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:46.178][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:46.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.180][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.181][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:46.181][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:46.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.183][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.184][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:46.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.187][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.188][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.189][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.193][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:46.194][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:46.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.195][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:46.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:46.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.199][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:46.200][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:46.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.201][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:46.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:46.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.206][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:46.207][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:46.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.208][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.209][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:46.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:46.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:46.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:46.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:46.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:46.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:46.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:46.243][self$createEntryFromContent] Accession numbers: 32151.
biodb.TRACE[2024-11-16 16:07:46.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:46.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:46.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:46.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:46.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:46.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:46.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:46.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:46.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:46.262][private$loadEntries] Creating entries from ids [1]: "67676".
biodb.DEBUG[2024-11-16 16:07:46.262][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:46.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67676".
biodb.TRACE[2024-11-16 16:07:46.265][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:46.265][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:46.266][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:46.267][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:46.268][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:46.268][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:46.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:46.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:46.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:46.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:46.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:46.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:46.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:46.279][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.DEBUG[2024-11-16 16:07:46.281][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:46.282][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:46.283][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.TRACE[2024-11-16 16:07:46.631][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676).
biodb.DEBUG[2024-11-16 16:07:46.965][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:46.967][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.content"
biodb.TRACE[2024-11-16 16:07:46.970][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.request"
biodb.TRACE[2024-11-16 16:07:46.971][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67676.xml"
biodb.DEBUG[2024-11-16 16:07:46.973][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:46.974][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:46.974][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:46.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:46.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:46.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:46.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:46.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:46.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:46.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:46.985][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.987][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.991][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:46.992][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:46.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.994][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.995][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:46.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:46.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:46.998][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:46.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:46.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:47.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.004][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:47.005][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:47.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.006][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:47.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:47.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.010][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.011][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.012][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:47.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:47.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.018][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.019][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:47.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:47.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.021][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.022][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:47.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.027][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.031][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:47.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:47.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.044][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.048][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:47.049][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:47.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.050][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:47.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.054][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:47.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:47.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.056][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:47.089][self$createEntryFromContent] Accession numbers: 67676.
biodb.TRACE[2024-11-16 16:07:47.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:47.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:47.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:47.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:47.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:47.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:47.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:47.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:47.107][private$loadEntries] Creating entries from ids [1]: "69690".
biodb.DEBUG[2024-11-16 16:07:47.108][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:47.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69690".
biodb.TRACE[2024-11-16 16:07:47.110][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:47.110][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:47.111][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:47.112][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:47.113][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:47.114][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:47.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:47.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:47.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:47.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:47.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:47.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:47.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:47.124][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.DEBUG[2024-11-16 16:07:47.126][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:47.127][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:47.128][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.TRACE[2024-11-16 16:07:47.459][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690).
biodb.DEBUG[2024-11-16 16:07:47.792][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:47.794][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.content"
biodb.TRACE[2024-11-16 16:07:47.797][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.request"
biodb.TRACE[2024-11-16 16:07:47.799][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69690.xml"
biodb.DEBUG[2024-11-16 16:07:47.800][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:47.801][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:47.801][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:47.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:47.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:47.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:47.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:47.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:47.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:47.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:47.813][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.819][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:47.819][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:47.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:47.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:47.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.825][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:47.825][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:47.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:47.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:47.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.831][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:47.832][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:47.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.833][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:47.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:47.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.837][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.838][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:47.844][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:47.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.845][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.846][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:47.847][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:47.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.848][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:47.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:47.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.859][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:47.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:47.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.861][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.865][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:47.866][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:47.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.867][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:47.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:47.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.871][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:47.872][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:47.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:47.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:47.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:47.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:47.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:47.908][self$createEntryFromContent] Accession numbers: 69690.
biodb.TRACE[2024-11-16 16:07:47.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:47.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:47.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:47.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:47.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:47.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:47.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:47.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:47.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:47.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:47.926][private$loadEntries] Creating entries from ids [1]: "69734".
biodb.DEBUG[2024-11-16 16:07:47.927][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:47.928][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69734".
biodb.TRACE[2024-11-16 16:07:47.929][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:47.930][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:47.931][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:47.932][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:47.932][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:47.933][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:47.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:47.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:47.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:47.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:47.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:47.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:47.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:47.944][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.DEBUG[2024-11-16 16:07:47.946][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:47.947][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:47.948][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.TRACE[2024-11-16 16:07:48.278][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734).
biodb.DEBUG[2024-11-16 16:07:48.607][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:48.618][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.content"
biodb.TRACE[2024-11-16 16:07:48.622][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.request"
biodb.TRACE[2024-11-16 16:07:48.624][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69734.xml"
biodb.DEBUG[2024-11-16 16:07:48.626][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:48.626][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:48.627][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:48.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:48.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:48.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:48.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:48.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:48.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:48.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:48.639][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.639][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.641][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.644][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:48.645][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:48.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.647][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:48.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:48.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.651][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:48.652][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:48.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.653][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:48.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:48.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.657][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:48.658][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:48.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.659][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:48.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.663][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:48.664][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:48.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:48.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:48.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.669][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:48.669][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:48.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.672][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:48.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:48.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.674][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.675][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:48.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:48.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.678][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.679][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.680][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.684][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:48.685][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:48.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.686][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:48.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:48.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.690][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:48.691][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:48.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.694][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:48.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:48.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.697][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:48.698][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:48.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.699][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.700][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:48.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:48.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:48.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:48.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:48.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:48.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:48.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:48.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:48.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:48.733][self$createEntryFromContent] Accession numbers: 69734.
biodb.TRACE[2024-11-16 16:07:48.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:48.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:48.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:48.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:48.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:48.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:48.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:48.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:48.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:48.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:48.752][private$loadEntries] Creating entries from ids [1]: "79978".
biodb.DEBUG[2024-11-16 16:07:48.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:48.754][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79978".
biodb.TRACE[2024-11-16 16:07:48.755][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:48.756][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:48.757][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:48.758][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:48.758][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:48.759][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:48.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:48.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:48.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:48.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:48.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:48.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:48.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:48.770][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.DEBUG[2024-11-16 16:07:48.772][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:48.773][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:48.774][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.TRACE[2024-11-16 16:07:49.104][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978).
biodb.DEBUG[2024-11-16 16:07:49.433][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:49.435][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.content"
biodb.TRACE[2024-11-16 16:07:49.438][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.request"
biodb.TRACE[2024-11-16 16:07:49.440][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79978.xml"
biodb.DEBUG[2024-11-16 16:07:49.442][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:49.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:49.443][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:49.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:49.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:49.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:49.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:49.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:49.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:49.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:49.454][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.461][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:49.462][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:49.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.463][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.464][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:49.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:49.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.467][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:49.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:49.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.469][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.470][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:49.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:49.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.473][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:49.474][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:49.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:49.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:49.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.479][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:49.480][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:49.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.482][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:49.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:49.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:49.487][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:49.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.489][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:49.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:49.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.492][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:49.493][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:49.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.495][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:49.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:49.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.499][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.501][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.505][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:49.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:49.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:49.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:49.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.511][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:49.512][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:49.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.515][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:49.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:49.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.518][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:49.519][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:49.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.520][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.521][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:49.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:49.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:49.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:49.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:49.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:49.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:49.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:49.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:49.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:49.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:49.563][self$createEntryFromContent] Accession numbers: 79978.
biodb.TRACE[2024-11-16 16:07:49.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:49.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:49.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:49.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:49.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:49.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:49.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:49.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:49.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:49.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:49.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:49.582][private$loadEntries] Creating entries from ids [1]: "88771".
biodb.DEBUG[2024-11-16 16:07:49.583][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-16 16:07:49.584][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88771".
biodb.TRACE[2024-11-16 16:07:49.585][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-16 16:07:49.585][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-16 16:07:49.586][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-16 16:07:49.587][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-16 16:07:49.588][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-16 16:07:49.588][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-16 16:07:49.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:49.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:49.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:49.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:49.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:49.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:49.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:49.599][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.DEBUG[2024-11-16 16:07:49.601][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-16 16:07:49.602][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-16 16:07:49.603][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.TRACE[2024-11-16 16:07:49.936][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771).
biodb.DEBUG[2024-11-16 16:07:50.267][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-16 16:07:50.268][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.content"
biodb.TRACE[2024-11-16 16:07:50.271][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.request"
biodb.TRACE[2024-11-16 16:07:50.273][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88771.xml"
biodb.DEBUG[2024-11-16 16:07:50.274][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-16 16:07:50.275][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-16 16:07:50.276][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-16 16:07:50.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.287][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.290][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.294][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:50.295][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:50.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.296][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.297][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:50.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:50.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.300][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:50.301][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:50.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.302][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.303][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:50.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:50.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.307][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:50.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:50.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.309][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:50.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:50.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.313][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:50.313][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:50.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.315][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:50.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:50.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.319][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:50.319][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:50.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.322][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:50.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:50.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.324][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.325][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-16 16:07:50.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:50.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.328][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.329][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.330][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.334][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:50.335][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:50.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.336][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:50.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:50.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:50.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:50.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.343][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-16 16:07:50.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:50.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.347][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:50.347][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:50.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.349][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:50.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:50.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:50.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:50.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.382][self$createEntryFromContent] Accession numbers: 88771.
biodb.TRACE[2024-11-16 16:07:50.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.427][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:50.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.444][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.444][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.445][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.454][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.458][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.463][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.463][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.466][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.466][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.476][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:50.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.492][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.493][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.494][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.495][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.497][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.502][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.505][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.505][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.515][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-11-16 16:07:50.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.531][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.532][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.532][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.536][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.539][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.540][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.542][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.543][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.553][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-11-16 16:07:50.554][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:50.555][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:50.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:50.566][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:50.569][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:50.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-11-16 16:07:50.570][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:50.571][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-11-16 16:07:50.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.644][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:50.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.660][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.661][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.662][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.662][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.666][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.669][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.669][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.670][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.671][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.672][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.673][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.674][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.683][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-11-16 16:07:50.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.705][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.706][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.711][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.719][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.729][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-11-16 16:07:50.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.744][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.745][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.746][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.746][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.749][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.753][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.757][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.767][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:50.767][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:50.768][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:50.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:50.795][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:50.798][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:50.799][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-11-16 16:07:50.799][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:50.801][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-11-16 16:07:50.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:50.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:50.929][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:50.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.946][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.946][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.947][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.949][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.950][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.951][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.952][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.953][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.955][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.956][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.956][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.965][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.966][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:50.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.976][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-11-16 16:07:50.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:50.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:50.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:50.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:50.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:50.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:50.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:50.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.993][private$selectFields]
biodb.TRACE[2024-11-16 16:07:50.993][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:50.994][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:50.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:50.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:50.998][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:50.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:50.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.001][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.002][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.006][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.006][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.016][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:51.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.032][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.034][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.038][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.040][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.041][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.042][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.045][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.046][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.056][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2024-11-16 16:07:51.057][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:51.058][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:51.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:51.070][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:51.072][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:51.073][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365d4ea5e0e90826806fec708da6c9ab".
biodb.TRACE[2024-11-16 16:07:51.074][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:51.075][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content".
biodb.DEBUG[2024-11-16 16:07:51.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.152][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:51.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.169][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.169][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.170][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.171][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.178][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.181][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.182][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.192][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2024-11-16 16:07:51.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.207][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.208][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.209][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.209][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.210][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.211][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.212][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.213][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.222][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.223][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.224][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.225][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.226][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.227][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.228][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.238][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:51.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.253][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.254][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.254][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.255][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.257][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.258][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.259][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.260][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.261][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.262][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.265][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.266][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.276][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-11-16 16:07:51.276][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:51.277][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:51.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:51.288][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:51.290][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:51.291][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7b0416ab2d5cbf869f248000c039a8e8".
biodb.TRACE[2024-11-16 16:07:51.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:51.293][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content".
biodb.DEBUG[2024-11-16 16:07:51.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.382][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:51.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.397][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.398][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.399][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.399][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.403][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.405][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.406][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.407][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.408][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.408][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.410][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.411][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.421][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2024-11-16 16:07:51.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.436][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.437][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.437][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.438][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.439][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.444][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.445][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.448][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.449][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.459][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2024-11-16 16:07:51.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.482][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.483][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.483][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.491][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.495][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.495][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.504][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2024-11-16 16:07:51.505][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:51.506][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:51.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:51.533][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:51.535][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:51.536][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:07:51.537][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:51.538][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:07:51.540][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:51.542][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:51.543][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:07:51.544][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:51.545][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:07:51.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.599][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:51.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.615][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.615][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.616][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.617][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.618][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.620][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.621][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.622][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.623][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.624][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.625][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.626][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.627][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.628][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.638][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:07:51.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.654][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.655][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.655][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.657][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.659][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.660][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.660][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.662][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.663][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.666][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.667][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.677][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:07:51.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.692][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.693][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.694][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.694][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.695][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.703][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.706][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.716][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:07:51.717][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:51.718][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:51.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:51.737][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:51.739][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:51.740][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-11-16 16:07:51.741][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:51.742][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-11-16 16:07:51.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.794][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:51.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.811][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.811][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.812][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.813][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.816][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.821][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.824][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:51.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.851][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.852][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.853][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.857][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.858][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.860][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.861][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.864][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.865][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.874][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-11-16 16:07:51.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.891][private$selectFields]
biodb.TRACE[2024-11-16 16:07:51.892][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:51.892][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:51.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.896][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.897][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.899][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.900][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:51.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.902][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.904][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:51.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:51.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.914][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-11-16 16:07:51.914][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:51.915][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:51.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:51.926][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:51.928][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:51.929][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-11-16 16:07:51.930][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:51.931][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-11-16 16:07:51.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:51.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:51.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:51.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:51.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:51.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:51.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:51.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:51.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:51.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:51.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:51.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.015][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:52.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.032][private$selectFields]
biodb.TRACE[2024-11-16 16:07:52.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:52.033][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:52.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.037][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.039][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.040][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.041][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.044][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.044][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:52.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.054][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-11-16 16:07:52.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.070][private$selectFields]
biodb.TRACE[2024-11-16 16:07:52.071][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:52.071][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:52.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.075][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.078][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.080][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.081][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.082][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.083][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:52.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.093][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-11-16 16:07:52.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.109][private$selectFields]
biodb.TRACE[2024-11-16 16:07:52.110][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:52.111][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:52.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.114][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.118][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.118][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.119][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.120][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.121][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.122][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:52.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.132][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-11-16 16:07:52.133][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:52.134][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:52.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:52.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:52.163][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:52.164][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26eec570aadd234892b573eb0777bd78".
biodb.TRACE[2024-11-16 16:07:52.165][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:52.166][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content".
biodb.DEBUG[2024-11-16 16:07:52.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.314][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:52.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.329][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.330][private$selectFields]
biodb.TRACE[2024-11-16 16:07:52.331][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:52.331][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:52.332][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.335][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.338][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.339][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.340][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.343][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.344][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:52.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.354][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-16 16:07:52.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.369][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.370][private$selectFields]
biodb.TRACE[2024-11-16 16:07:52.371][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:52.372][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:52.372][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.374][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.375][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.378][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.379][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.380][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.382][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.383][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:52.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.394][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-16 16:07:52.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.410][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.410][private$selectFields]
biodb.TRACE[2024-11-16 16:07:52.411][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:52.412][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:52.413][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.413][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.416][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.419][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.420][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:52.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.424][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:52.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.434][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-16 16:07:52.435][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:52.436][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:52.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:52.447][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:52.449][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:52.450][cch$loadFileContent] Trying to load 1 files from cache: [1]: "20c224089a82bbffabd2e7dbc67cfae3".
biodb.TRACE[2024-11-16 16:07:52.451][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:52.453][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content".
biodb.DEBUG[2024-11-16 16:07:52.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:52.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:52.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:52.988][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:52.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:52.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:52.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:52.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:52.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:52.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:52.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:52.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:52.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.003][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.004][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.005][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.006][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.009][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.010][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.012][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.013][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.024][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.024][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:53.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.034][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-11-16 16:07:53.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.050][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.051][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.051][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.052][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.053][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.055][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.057][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.059][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.060][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.061][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.062][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.063][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:53.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.072][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-11-16 16:07:53.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.087][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.088][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.089][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.090][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.096][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.097][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.097][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.101][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:53.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.111][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-11-16 16:07:53.112][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:53.112][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:53.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:53.124][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:53.127][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:53.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-11-16 16:07:53.128][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:53.130][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-11-16 16:07:53.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.204][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:53.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.220][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.221][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.222][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.225][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.226][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.227][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.228][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.229][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.234][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:53.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.244][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-11-16 16:07:53.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.261][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.262][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.262][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.265][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.272][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.276][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.277][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.277][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.281][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:53.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.291][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-11-16 16:07:53.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.306][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.307][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.308][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.309][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.312][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.314][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.316][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-16 16:07:53.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.317][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.318][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.319][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-16 16:07:53.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.329][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-11-16 16:07:53.330][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:53.331][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:07:53.348][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:07:53.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:07:53.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.351][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:07:53.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:07:53.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.354][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:07:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:07:53.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:07:53.360][biodb::testThat]
biodb.INFO [2024-11-16 16:07:53.361][biodb::testThat] Running test function test_annotateMzValues_additional_fields (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2024-11-16 16:07:53.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-16 16:07:53.362][biodb::testThat]
biodb.TRACE[2024-11-16 16:07:53.365][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:07:53.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:07:53.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.368][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:07:53.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:07:53.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.371][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-16 16:07:53.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-16 16:07:53.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:53.422][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:53.424][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:53.425][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:07:53.426][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:53.427][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:07:53.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.447][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:53.450][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:53.451][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:07:53.452][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:53.453][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:07:53.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:53.490][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:53.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.505][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.508][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.546][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.560][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.563][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.572][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.575][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.578][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:53.579][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.580][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.580][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.581][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:53.582][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.583][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.585][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.585][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.587][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.590][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.593][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.594][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.594][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.596][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.597][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.599][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.601][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.602][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.603][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.604][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.605][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.606][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.607][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.608][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.609][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.611][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.611][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.614][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.614][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.616][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.617][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.618][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.619][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.620][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.621][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.622][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.624][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.625][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.626][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.627][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.629][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.630][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.631][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.632][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.633][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.634][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.637][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.638][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.639][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.641][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.642][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.644][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.645][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.646][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.647][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.648][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.650][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.651][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.653][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:53.654][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:53.655][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.656][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.657][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.658][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.659][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.661][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.663][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.663][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.664][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.666][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.666][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.667][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.669][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.670][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.672][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.675][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.678][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.679][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.682][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.685][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.687][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.687][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:53.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.697][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.703][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.719][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.762][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.765][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.775][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.779][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.794][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.803][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2024-11-16 16:07:53.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:53.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:53.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:53.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:53.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:53.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:53.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:53.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.818][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.821][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.839][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.848][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.851][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.866][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.878][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.884][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:53.885][private$selectFields]
biodb.TRACE[2024-11-16 16:07:53.886][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:53.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:53.887][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:53.888][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.889][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.891][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.892][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.892][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.894][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.897][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.898][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.898][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.901][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.902][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.904][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.904][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.906][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.909][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.910][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.910][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.912][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.912][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.913][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.915][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.915][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.916][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.918][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.919][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.922][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.922][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.924][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.925][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.928][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.929][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.930][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.933][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.934][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.934][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.936][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.940][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.942][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.943][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.943][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.945][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.946][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.949][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.952][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.953][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.955][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.956][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.958][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.959][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.961][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:53.962][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:53.962][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:53.963][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:53.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.965][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.965][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:53.966][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:53.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.968][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:53.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.971][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.971][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:53.972][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:53.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.975][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:53.975][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:53.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.977][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:53.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.981][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:53.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.983][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.984][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.985][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:53.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.987][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:53.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.989][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.990][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.991][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:53.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.992][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.993][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:53.994][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:53.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.995][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.996][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:53.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:53.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:53.998][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:53.999][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:54.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.170][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.187][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.207][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.210][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.213][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.233][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.236][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.250][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.263][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-11-16 16:07:54.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.281][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.290][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.309][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.328][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.343][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.346][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:54.347][private$selectFields]
biodb.TRACE[2024-11-16 16:07:54.348][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:54.348][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:54.349][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:54.350][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.351][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.352][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.353][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.354][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.355][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.358][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.359][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.360][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.362][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.363][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.365][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.366][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.367][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.368][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.369][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.370][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.371][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.371][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.373][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.373][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.374][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.376][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.377][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.377][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.380][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.381][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.382][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.383][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.385][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.386][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.386][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.388][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.388][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.389][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.391][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.392][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.394][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.395][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.397][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.398][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.399][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.400][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.401][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.403][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.403][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.406][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.407][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.407][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.409][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.416][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.417][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.420][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.420][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.422][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.423][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.423][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.425][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.426][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:54.427][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:54.427][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.428][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.430][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.430][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.431][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.433][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.433][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.434][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.436][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.436][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.438][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.442][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.443][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.444][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.445][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.446][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.447][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.451][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.452][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.453][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.454][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.455][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.456][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.457][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.459][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.460][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:54.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.470][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.473][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.476][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.493][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.531][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.537][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.543][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.548][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.555][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.561][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:07:54.562][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:54.563][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:54.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:54.575][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:54.577][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:54.578][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-11-16 16:07:54.579][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:54.580][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-11-16 16:07:54.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:54.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:54.618][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:54.620][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:54.621][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-11-16 16:07:54.622][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:54.623][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-11-16 16:07:54.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:54.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:54.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:54.682][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:54.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.698][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.701][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.727][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.744][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.755][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.758][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.761][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:54.762][private$selectFields]
biodb.TRACE[2024-11-16 16:07:54.763][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:54.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:54.764][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:54.765][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.768][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.768][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.770][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.772][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.773][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.775][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.776][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.777][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.778][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.779][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.784][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.785][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.785][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.788][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.791][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.793][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.794][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.796][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.797][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.799][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.800][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.800][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.802][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.802][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.803][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.805][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.809][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.809][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.811][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.812][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.815][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.818][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.818][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.821][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.822][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.824][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.825][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.826][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.827][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.828][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.830][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.834][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.835][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.836][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:54.836][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:54.837][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.840][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.841][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.842][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.845][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.846][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.847][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.848][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.849][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.850][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.855][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.855][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.857][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.858][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.858][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.860][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.861][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.863][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.864][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.864][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.866][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.866][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.867][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.868][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.869][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.870][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.872][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.873][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:54.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:54.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.883][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.886][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.889][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:54.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:54.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:54.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.907][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:54.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:54.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:54.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:54.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:54.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.932][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.935][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.938][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:54.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:54.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:54.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.959][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.961][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:54.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:54.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:54.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.976][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.979][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:54.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:54.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:54.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:54.989][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:07:54.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:54.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:54.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:54.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:54.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:54.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:54.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:54.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:54.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.004][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.037][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.052][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.055][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.067][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.070][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.070][private$selectFields]
biodb.TRACE[2024-11-16 16:07:55.071][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:55.072][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:55.072][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.073][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.074][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.075][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.076][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.076][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.078][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.081][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.082][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.084][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.085][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.085][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.087][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.088][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.090][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.090][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.091][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.093][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.095][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.098][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.099][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.102][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.103][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.104][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.107][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.108][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.109][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.110][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.111][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.111][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.114][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.116][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.117][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.117][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.120][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.120][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.122][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.123][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.123][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.125][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.128][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.129][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.129][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.131][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.132][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.133][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.134][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.135][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.136][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.137][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.138][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.138][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.140][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.140][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.141][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.144][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.144][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.145][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.148][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.149][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.153][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.154][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.154][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.156][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.156][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.157][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.159][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.160][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.160][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.166][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.168][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.169][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.171][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.172][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.172][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.174][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.174][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.175][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.177][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.178][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.179][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.181][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.182][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.183][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:55.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.192][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.198][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.210][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.238][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.241][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.263][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.291][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:07:55.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.307][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.310][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.354][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.371][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.372][private$selectFields]
biodb.TRACE[2024-11-16 16:07:55.372][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:55.373][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:55.374][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.375][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.375][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.377][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.377][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.378][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.382][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.383][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.385][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.386][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.387][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.388][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.389][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.390][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.391][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.392][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.392][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.394][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.395][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.397][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.397][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.398][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.399][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.400][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.401][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.406][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.407][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.408][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.409][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.412][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.413][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.415][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.415][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.416][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.428][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.432][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.432][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.433][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.436][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.438][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.438][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.439][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.444][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.444][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.446][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.450][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.452][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.452][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.453][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.455][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.456][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.458][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:55.459][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:55.459][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.460][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.462][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.463][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.467][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.467][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.469][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.471][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.471][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.473][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.474][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.476][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.477][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.478][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.479][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.479][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.481][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.482][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.483][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.484][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.485][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.485][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.487][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.488][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.489][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.490][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:55.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.500][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.502][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.505][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.523][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.562][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.567][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.574][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.585][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.592][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:07:55.592][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:55.593][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:55.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:55.605][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:55.608][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:55.608][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-11-16 16:07:55.609][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:55.610][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-11-16 16:07:55.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.752][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:55.754][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:55.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-11-16 16:07:55.756][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:55.757][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-11-16 16:07:55.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:55.809][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:55.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:55.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:55.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:55.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:55.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:55.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:55.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:55.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.824][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.827][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.853][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.856][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.888][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.889][private$selectFields]
biodb.TRACE[2024-11-16 16:07:55.890][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:55.891][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:55.891][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.892][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.893][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.894][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.895][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.896][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.897][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.901][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.901][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.903][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.904][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.906][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.907][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.907][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.913][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.914][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.914][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.916][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.916][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.918][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.919][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.920][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.921][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.924][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.925][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.925][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.928][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.928][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.930][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.930][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.931][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.933][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.934][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.936][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.938][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.938][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.939][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.941][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.941][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.942][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.944][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.945][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.946][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.947][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.947][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.949][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.950][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.950][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.952][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.952][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.953][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.955][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.956][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.958][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.958][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.962][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.963][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.964][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:55.964][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.965][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:55.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.967][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:55.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:55.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.970][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:55.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.972][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.972][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:55.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:55.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.975][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:55.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:55.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.978][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.979][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:55.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.981][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:55.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.983][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.984][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.985][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:55.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.987][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:55.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.989][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.990][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:55.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.992][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.992][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:55.993][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:55.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.994][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:55.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:55.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:55.997][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:55.998][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:55.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:55.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.011][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.014][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.028][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.030][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.043][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.046][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.052][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.054][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.057][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.082][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.085][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.097][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.100][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.103][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.110][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2024-11-16 16:07:56.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:56.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.127][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.139][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.142][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.161][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.164][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.178][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.184][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.192][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.195][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:56.196][private$selectFields]
biodb.TRACE[2024-11-16 16:07:56.196][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:56.197][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:56.198][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:56.198][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.199][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.200][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.201][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.202][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.203][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.206][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.207][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.209][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.210][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.210][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.212][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.214][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.215][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.216][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.218][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.218][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.219][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.220][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.221][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.222][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.224][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.224][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.226][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.227][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.228][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.229][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.230][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.232][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.233][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.234][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.235][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.236][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.237][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.241][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.241][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.243][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.244][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.246][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.246][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.247][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.252][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.252][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.258][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.260][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.263][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.263][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.266][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:56.267][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:56.268][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.269][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.270][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.271][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.273][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.276][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.277][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.278][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.279][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.280][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.282][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.283][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.285][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.285][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.287][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.288][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.289][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.290][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.292][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.293][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.294][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.299][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:56.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.308][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.311][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.326][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.370][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.373][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.398][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.404][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2024-11-16 16:07:56.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:56.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.419][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.422][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.447][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.450][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.482][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:56.482][private$selectFields]
biodb.TRACE[2024-11-16 16:07:56.483][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:56.484][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:56.484][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:56.485][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.486][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.488][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.489][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.491][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.494][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.495][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.497][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.498][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.500][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.500][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.502][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.503][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.504][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.505][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.506][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.507][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.508][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.509][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.511][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.512][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.512][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.515][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.516][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.518][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.519][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.520][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.521][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.523][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.523][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.524][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.526][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.526][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.527][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.528][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.529][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.531][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.532][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.534][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.535][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.538][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.538][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.540][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.541][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.541][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.543][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.544][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.546][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.546][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.547][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.549][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.550][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.552][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.552][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.553][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.555][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:56.556][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:56.557][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.558][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.560][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.562][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.563][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.565][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.566][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.566][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.568][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.569][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.571][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.571][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.572][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.573][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.576][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.577][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.578][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.580][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.581][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.582][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.583][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.583][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.585][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.586][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.587][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.588][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:56.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.619][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.665][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.690][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:07:56.691][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:56.692][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:56.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:56.708][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:56.710][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:56.711][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-16 16:07:56.712][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:56.713][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-16 16:07:56.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:56.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:56.731][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:56.733][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:56.734][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-16 16:07:56.735][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:56.736][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-16 16:07:56.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:56.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:56.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:56.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:56.772][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:56.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:56.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:56.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:56.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:56.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:56.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:56.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:56.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.787][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.789][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.815][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.819][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.833][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.845][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.848][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.850][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.853][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.856][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:56.857][private$selectFields]
biodb.TRACE[2024-11-16 16:07:56.858][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:56.858][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:56.859][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:56.860][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.861][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.862][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.863][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.865][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.867][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.868][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.869][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.871][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.873][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.874][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.881][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.883][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.883][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.884][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.886][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.886][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.889][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.890][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.891][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.892][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.892][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.894][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.894][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.895][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.896][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.897][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.898][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.900][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.901][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.902][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.903][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.904][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.905][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.908][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.909][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.910][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.911][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.912][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.913][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.914][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.915][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.916][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.917][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.917][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:56.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.919][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.920][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.922][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.923][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.924][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.925][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.926][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.928][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.929][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.930][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.931][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.931][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.933][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.933][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.934][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:56.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.936][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:56.937][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:56.937][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.940][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.940][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.942][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.943][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.944][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.945][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.946][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.946][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.948][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:56.949][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:56.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.950][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.951][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:56.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.954][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.955][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:56.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.956][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.958][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:56.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.959][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.960][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.961][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:56.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.962][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.963][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:56.963][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:56.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.965][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:56.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:56.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.968][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.969][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:56.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:56.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:56.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.978][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.981][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.984][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:56.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:56.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:56.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:56.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:56.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:56.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:56.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.002][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.040][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.043][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.046][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.058][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.061][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.071][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2024-11-16 16:07:57.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.087][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.121][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.124][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.139][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.142][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.156][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.162][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.163][private$selectFields]
biodb.TRACE[2024-11-16 16:07:57.163][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:57.164][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:57.165][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.165][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.167][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.168][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.169][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.171][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.174][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.175][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.179][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.180][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.180][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.182][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.183][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.185][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.185][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.186][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.188][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.190][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.191][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.194][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.195][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.196][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.197][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.197][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.199][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.199][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.200][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.201][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.202][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.203][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.204][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.205][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.206][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.207][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.208][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.210][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.211][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.213][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.216][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.217][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.219][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.219][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.220][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.222][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.222][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.223][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.224][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.225][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.226][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.227][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.228][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.228][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.230][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.231][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.233][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.234][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.235][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.236][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.237][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.239][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.240][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.241][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.241][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.243][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.243][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.244][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.246][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.249][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.250][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.252][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.253][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.255][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.257][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.258][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.259][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.260][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.261][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.262][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.263][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.263][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.265][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.266][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.267][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.268][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.269][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.270][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.272][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.272][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.274][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:57.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.287][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.328][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.331][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.364][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.376][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.380][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.390][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-11-16 16:07:57.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.405][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.408][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.433][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.437][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.454][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.463][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.466][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.469][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.474][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.475][private$selectFields]
biodb.TRACE[2024-11-16 16:07:57.476][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:57.477][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:57.477][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.478][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.479][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.481][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.481][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.482][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.483][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.484][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.487][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.488][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.496][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.499][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.501][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.503][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.505][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.506][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.508][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.509][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.510][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.511][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.512][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.514][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.515][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.517][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.518][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.519][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.520][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.521][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.523][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.525][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.526][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.528][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.529][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.529][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.531][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.531][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.532][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.533][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.538][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.540][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.540][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.542][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.543][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.544][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.545][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.546][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.549][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.550][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.551][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.552][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.553][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.555][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:57.556][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:57.556][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.557][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.558][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.559][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.560][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.561][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.563][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.564][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.565][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.566][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.567][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.568][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.570][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.571][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.572][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.573][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.576][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.577][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.578][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.580][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.581][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.582][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.583][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.584][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.586][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.586][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.589][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:57.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.599][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.606][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.609][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.626][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.665][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.668][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.691][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:07:57.692][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:57.692][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:57.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:57.704][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:57.706][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:57.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-11-16 16:07:57.708][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:57.709][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-11-16 16:07:57.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:57.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:57.745][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:57.747][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:57.748][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-11-16 16:07:57.749][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:57.750][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-11-16 16:07:57.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:57.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:57.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:57.803][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:57.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:57.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:57.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:57.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:57.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:57.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:57.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:57.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.818][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.821][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.851][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.871][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.880][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.883][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.886][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.889][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.891][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.892][private$selectFields]
biodb.TRACE[2024-11-16 16:07:57.893][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:57.894][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:57.894][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.895][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.897][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.898][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.899][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.903][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.904][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.906][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.907][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.909][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.909][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.910][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.912][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.912][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.913][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.915][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.916][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.917][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.918][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.919][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.920][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.921][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.923][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.924][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.924][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.927][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.928][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.930][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.930][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.932][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.932][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.933][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.936][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.936][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.938][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.938][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.939][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.941][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.941][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.942][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.944][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.946][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.947][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.948][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.949][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.950][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.951][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.952][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.953][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.954][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.955][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.956][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.957][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.958][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.959][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.960][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:57.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.961][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.962][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:57.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:57.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.964][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.965][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:57.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:57.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.967][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.968][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.969][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:57.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.971][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.972][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:57.972][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:57.973][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:57.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.975][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:57.976][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:57.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.978][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:57.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.981][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:57.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:57.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.984][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:57.985][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:57.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.987][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.988][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:57.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.990][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.990][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.991][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:57.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.993][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.993][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:57.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.996][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.996][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.997][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:57.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:57.998][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:57.999][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.000][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.001][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.002][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.003][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.005][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.006][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.007][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.008][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:58.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.018][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.021][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.024][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.042][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.063][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.066][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.069][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.094][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.097][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.100][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.118][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.125][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:07:58.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.140][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.143][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.169][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.172][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.201][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.204][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.219][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.222][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.225][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:58.225][private$selectFields]
biodb.TRACE[2024-11-16 16:07:58.226][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:58.227][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:58.227][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:58.228][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.229][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.231][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.232][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.236][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.237][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.237][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.240][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.241][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.242][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.243][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.243][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.246][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.249][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.249][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.252][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.255][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.257][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.258][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.259][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.260][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.261][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.262][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.263][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.264][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.269][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.275][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.277][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.278][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.279][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.282][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.285][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.286][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.287][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.289][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.290][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.290][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.292][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.293][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.294][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.296][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.297][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.299][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.300][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.301][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.302][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.302][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.304][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.305][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:58.305][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:58.306][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.308][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.309][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.310][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.311][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.314][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.315][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.316][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.317][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.319][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.320][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.323][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.323][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.324][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.327][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.327][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.329][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.330][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.332][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.332][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.335][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.335][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.336][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.338][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.338][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.339][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.340][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.341][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:58.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.355][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.358][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.361][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.376][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.379][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.400][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.402][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.405][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.426][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.429][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.432][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.438][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.444][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.447][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.457][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:07:58.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.472][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.475][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.501][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.504][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.519][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.533][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.537][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.543][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:58.543][private$selectFields]
biodb.TRACE[2024-11-16 16:07:58.544][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:58.545][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:58.545][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:58.546][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.547][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.549][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.550][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.551][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.552][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.555][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.556][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.557][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.561][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.561][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.563][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.564][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.565][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.567][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.569][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.570][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.571][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.573][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.575][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.575][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.576][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.577][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.581][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.581][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.582][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.583][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.584][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.585][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.586][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.587][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.588][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.590][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.596][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.597][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.598][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.599][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.600][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.601][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.602][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.602][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.603][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.604][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.605][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:58.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.607][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.608][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.609][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.612][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.614][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.615][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.616][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.617][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.618][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.619][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.619][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.620][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.621][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.622][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.623][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:58.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.625][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.625][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:58.626][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:58.627][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.628][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.629][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.630][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.631][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.632][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.635][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.635][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.636][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.639][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.641][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.641][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.642][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.644][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.645][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.646][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.649][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.650][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.650][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.653][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.654][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.655][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.656][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.656][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.659][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:58.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.668][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.671][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.674][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:58.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:58.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:58.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.688][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:58.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:58.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:58.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:58.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:58.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.730][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.736][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:58.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.742][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:58.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:58.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.751][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:58.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:58.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.761][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:07:58.762][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:58.762][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:07:58.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:58.774][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:58.777][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:58.778][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-11-16 16:07:58.778][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:58.779][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-11-16 16:07:58.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.924][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:07:58.926][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:07:58.927][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-11-16 16:07:58.928][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:07:58.929][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-11-16 16:07:58.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:58.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:58.985][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:07:58.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:58.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:58.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:58.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:58.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:58.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:58.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:58.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:58.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:58.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:58.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:58.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.001][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.004][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.014][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.017][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.023][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.032][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.035][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.063][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.066][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.069][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.072][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.075][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.076][private$selectFields]
biodb.TRACE[2024-11-16 16:07:59.077][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:59.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:59.078][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.079][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.080][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.082][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.082][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.083][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.085][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.087][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.088][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.090][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.091][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.092][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.094][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.094][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.095][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.097][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.097][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.098][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.104][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.105][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.106][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.107][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.108][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.109][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.110][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.111][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.112][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.114][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.115][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.117][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.118][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.120][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.121][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.123][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.123][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.124][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.126][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.126][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.127][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.129][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.130][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.132][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.133][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.133][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.135][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.136][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.138][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.142][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.143][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.144][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.145][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.146][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.151][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.154][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.157][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.158][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.159][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.160][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.161][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.162][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.163][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.164][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.165][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.167][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.168][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.168][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.171][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.174][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.179][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.180][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.181][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.182][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.183][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.185][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.185][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.186][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.188][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.189][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.191][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.191][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.194][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.195][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.197][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.198][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.198][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.200][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.200][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:59.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.210][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.217][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.257][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.260][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.263][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.285][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.288][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.291][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.304][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.307][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.317][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2024-11-16 16:07:59.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:59.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:59.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:59.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:59.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:59.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:59.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:59.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.333][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.348][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.391][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.409][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.412][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.412][private$selectFields]
biodb.TRACE[2024-11-16 16:07:59.413][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:59.414][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:59.414][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.415][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.416][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.418][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.420][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.424][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.424][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.426][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.427][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.429][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.432][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.435][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.436][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.437][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.438][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.440][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.441][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.442][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.443][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.444][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.445][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.446][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.447][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.448][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.450][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.450][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.452][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.452][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.456][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.457][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.458][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.462][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.462][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.464][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.464][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.466][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.467][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.468][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.468][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.470][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.473][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.474][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.476][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.479][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.479][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.480][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.482][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.483][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.483][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.485][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.486][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.489][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.489][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.491][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.492][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:59.493][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:59.493][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.494][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.495][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.496][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.501][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.502][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.505][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.505][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.506][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.508][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.510][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.511][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.512][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.514][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.516][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.517][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.518][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.519][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.520][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.521][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.522][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.523][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.525][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.526][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:59.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.539][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.542][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.554][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.600][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.603][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.611][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.623][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.626][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.635][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2024-11-16 16:07:59.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:59.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:59.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:59.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:59.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:59.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:59.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:07:59.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.651][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.654][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.681][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.684][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.698][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.701][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.710][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.719][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.722][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.723][private$selectFields]
biodb.TRACE[2024-11-16 16:07:59.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:07:59.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:07:59.725][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:07:59.725][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.726][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.728][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.728][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.729][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.730][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.733][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.734][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.736][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.738][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.739][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.740][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.742][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.743][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.743][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.745][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.745][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.747][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.748][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.749][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.749][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.752][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.752][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.754][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.754][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.755][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.757][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.758][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.760][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.761][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.761][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.763][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.764][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.766][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.766][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.767][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.768][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.772][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.772][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.775][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.775][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.776][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.778][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.779][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.780][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:07:59.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.784][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.785][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.785][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.789][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.791][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.793][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.794][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.795][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.797][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.798][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.799][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.800][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.801][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:07:59.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.802][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.803][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:59.804][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:07:59.805][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.805][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.807][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.808][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.808][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.810][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.811][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.813][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.816][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.820][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.820][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.822][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.822][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.823][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.825][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.826][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.828][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.828][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.829][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.831][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.832][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.834][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.835][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.837][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:07:59.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:07:59.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:07:59.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.847][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.850][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.858][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:07:59.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:07:59.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:07:59.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.876][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:07:59.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:07:59.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:07:59.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:07:59.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:07:59.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:07:59.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.915][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.918][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.921][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:07:59.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:07:59.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:07:59.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.933][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.936][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:07:59.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:07:59.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.945][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:07:59.946][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:07:59.947][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:07:59.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:07:59.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:07:59.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:07:59.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:07:59.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:07:59.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:07:59.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:07:59.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:07:59.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:07:59.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:07:59.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:07:59.999][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:00.002][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:00.003][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:08:00.004][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:00.005][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:08:00.008][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:00.010][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:00.011][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:08:00.011][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:00.012][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:08:00.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:00.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:00.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:00.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:00.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:00.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:00.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:00.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:00.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:00.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:00.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:00.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:00.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:00.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:00.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:00.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:00.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:00.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:00.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:00.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:00.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:00.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:00.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:00.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:00.069][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:08:00.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:00.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:00.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:00.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:00.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:00.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:00.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:00.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.088][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.120][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.141][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.153][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.156][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.157][private$selectFields]
biodb.TRACE[2024-11-16 16:08:00.157][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:00.158][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:00.159][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.160][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.162][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.163][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.163][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.166][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.168][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.169][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.169][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.171][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.172][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.172][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.174][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.174][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.175][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.177][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.178][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.180][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.181][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.181][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.183][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.185][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.186][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.187][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.189][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.189][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.191][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.192][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.193][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.195][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.196][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.197][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.198][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.198][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.200][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.200][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.201][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.203][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.204][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.204][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.206][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.206][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.207][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.209][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.209][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.210][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.211][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.213][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.214][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.215][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.216][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.217][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.220][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.221][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.222][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.224][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.225][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.227][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.227][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.229][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.230][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.230][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.231][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.232][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.234][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.235][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.236][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.240][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.241][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.242][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.243][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.243][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.246][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.246][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.249][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.251][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.252][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.254][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.255][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.257][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.260][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.263][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.263][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.266][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:00.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.276][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.279][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.282][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.321][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.324][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.354][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.376][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.392][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:08:00.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:00.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:00.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:00.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:00.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:00.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:00.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:00.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.412][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.415][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.424][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.442][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.445][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.476][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.477][private$selectFields]
biodb.TRACE[2024-11-16 16:08:00.478][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:00.479][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:00.480][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.480][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.481][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.482][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.483][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.484][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.489][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.490][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.491][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.492][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.492][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.495][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.497][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.501][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.502][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.503][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.504][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.505][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.506][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.507][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.508][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.510][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.511][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.512][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.513][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.514][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.516][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.517][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.518][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.519][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.520][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.521][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.523][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.524][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.525][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.526][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.527][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.528][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.529][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.530][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.531][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.532][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.533][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.536][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.537][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.539][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.540][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.542][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.543][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.544][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.545][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.546][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.549][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.549][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.551][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.552][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.553][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.553][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.554][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.556][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.556][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.557][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.558][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.559][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.560][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.561][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.562][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.563][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.564][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.565][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.566][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.567][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.568][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.569][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.570][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.571][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.572][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.573][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.576][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.577][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.578][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.579][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.580][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.581][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.582][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.583][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.584][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.586][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.587][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.589][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:00.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.599][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.602][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.605][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.648][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.652][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.654][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.675][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.693][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.697][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.707][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-11-16 16:08:00.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:00.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:00.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:00.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:00.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:00.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:00.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:00.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.722][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.725][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.755][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.770][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.773][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.779][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.782][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.785][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.788][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.789][private$selectFields]
biodb.TRACE[2024-11-16 16:08:00.789][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:00.790][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:00.791][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:00.792][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.795][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.796][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.797][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.800][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.801][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.804][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.805][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.806][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.807][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.807][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.809][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.810][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.813][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.813][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.816][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.817][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.818][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.819][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.819][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.821][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.825][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.825][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.827][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.828][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.831][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.831][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.833][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.836][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.837][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.842][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.844][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.845][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:00.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.848][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.849][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.852][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.854][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.855][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.857][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.858][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.858][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.860][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.860][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.863][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:00.864][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:00.869][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.870][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.872][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.872][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.875][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.876][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.878][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.878][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.879][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.881][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.882][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.883][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.886][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.886][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.887][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.889][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.890][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.892][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.893][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.894][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.895][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.896][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.897][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.898][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.899][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.901][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:00.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:00.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:00.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.911][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.913][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.916][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:00.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:00.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:00.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:00.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:00.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:00.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:00.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:00.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:00.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:00.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.973][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.977][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.979][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:00.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:00.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:00.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.992][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:00.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:00.998][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:00.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:00.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.005][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:08:01.005][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:08:01.006][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:08:01.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:08:01.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:01.021][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:01.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-11-16 16:08:01.023][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:01.024][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-11-16 16:08:01.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:01.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:01.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:01.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:01.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:01.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:01.079][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:08:01.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:01.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.095][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.098][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.110][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.130][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.133][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.148][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.151][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.166][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.167][private$selectFields]
biodb.TRACE[2024-11-16 16:08:01.168][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:01.168][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:01.169][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.170][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.171][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.172][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.173][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.173][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.175][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.176][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.179][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.179][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.181][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.182][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.182][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.184][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.184][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.185][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.186][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.187][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.190][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.190][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.191][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.194][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.196][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.196][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.197][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.198][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.199][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.200][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.202][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.202][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.203][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.204][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.205][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.207][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.208][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.209][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.210][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.211][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.212][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.213][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.214][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.216][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.217][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.218][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.220][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.220][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.221][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.227][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.227][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.229][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.229][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.230][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.231][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.232][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.233][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.235][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.235][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.236][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.238][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.239][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.241][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.241][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.242][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.243][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.243][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.246][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.247][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.250][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.252][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.253][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.255][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.256][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.258][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.259][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.261][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.261][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.262][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.264][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.264][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.265][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.267][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.270][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.271][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.272][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.273][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.274][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.276][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.277][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.278][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.279][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:01.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.292][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.295][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.314][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.362][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.365][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.372][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.385][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.398][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:08:01.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:01.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.416][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.428][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.443][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.446][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.473][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.478][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.479][private$selectFields]
biodb.TRACE[2024-11-16 16:08:01.480][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:01.480][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:01.481][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.482][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.483][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.484][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.485][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.486][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.489][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.491][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.491][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.493][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.494][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.495][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.496][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.498][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.500][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.502][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.503][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.505][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.508][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.509][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.510][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.511][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.512][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.515][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.518][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.519][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.520][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.521][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.522][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.523][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.524][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.525][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.526][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.527][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.528][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.529][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.530][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.531][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.532][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.533][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.534][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.535][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.536][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.537][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.538][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.539][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.539][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.543][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.544][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.545][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.546][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.548][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.548][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.550][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.551][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.552][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.554][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:01.555][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:01.555][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.556][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.558][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.558][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.559][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.561][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.562][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.564][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.564][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.567][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.567][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.568][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.569][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.570][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.571][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.573][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.574][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.575][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.576][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.578][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.579][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.580][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.581][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.582][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.583][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.585][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.585][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.587][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.588][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:01.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.597][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.626][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.663][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.675][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.687][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.694][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:08:01.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:01.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:01.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:01.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:01.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:01.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.709][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.713][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.742][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.766][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.775][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.775][private$selectFields]
biodb.TRACE[2024-11-16 16:08:01.776][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:01.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:01.778][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:01.779][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.782][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.783][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.784][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.787][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.788][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.789][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.790][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.791][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.793][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.793][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.794][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.796][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.797][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.799][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.800][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.801][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.805][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.805][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.806][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.808][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.809][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.812][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.813][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.814][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.815][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.817][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.818][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.822][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.823][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.826][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.827][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.830][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.832][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.833][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:01.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.835][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.837][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.838][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.839][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.841][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.841][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.842][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.844][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.844][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.845][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.846][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.850][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:01.851][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:01.851][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.852][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.855][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.855][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.857][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.858][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.864][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.865][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.866][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.868][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.868][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.869][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.872][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.873][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.874][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.874][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.876][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.876][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.877][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.879][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.880][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.880][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.882][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.882][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.885][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.885][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.886][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.888][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:01.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:01.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:01.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.901][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.904][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:01.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:01.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:01.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:01.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:01.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:01.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:01.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:01.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:01.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.961][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:01.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:01.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:01.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.978][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.981][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.984][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:01.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:01.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:01.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:01.991][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:08:01.992][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:08:01.992][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:08:01.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:01.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:01.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:08:02.004][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:02.007][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:02.008][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-11-16 16:08:02.008][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:02.009][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-11-16 16:08:02.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:02.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:02.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:02.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:02.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:02.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:02.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:02.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:02.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:02.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:02.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:02.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:02.064][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:08:02.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:02.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:02.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:02.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.080][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.115][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.118][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.133][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.144][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.150][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.151][private$selectFields]
biodb.TRACE[2024-11-16 16:08:02.152][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:02.152][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:02.153][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.154][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.155][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.156][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.157][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.158][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.159][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.162][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.163][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.163][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.165][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.166][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.168][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.168][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.169][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.171][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.171][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.172][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.174][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.175][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.178][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.179][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.180][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.181][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.182][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.183][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.184][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.185][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.186][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.186][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.188][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.188][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.190][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.191][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.194][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.197][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.197][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.199][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.200][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.201][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.202][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.203][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.204][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.205][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.206][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.207][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.208][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.209][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.210][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.211][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.212][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.213][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.214][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.215][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.217][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.218][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.219][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.220][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.221][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.224][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.224][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.225][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.227][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.228][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.229][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.233][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.233][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.236][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.237][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.237][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.240][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.240][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.242][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.242][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.243][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.244][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.245][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.246][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.247][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.248][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.249][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.251][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.252][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.253][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.254][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.257][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.258][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.259][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.260][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:02.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.270][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.273][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.318][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.321][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.343][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.346][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.371][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.378][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2024-11-16 16:08:02.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:02.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:02.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.405][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.422][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.452][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.457][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.458][private$selectFields]
biodb.TRACE[2024-11-16 16:08:02.459][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:02.459][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:02.460][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.461][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.463][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.464][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.464][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.466][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.469][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.470][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.472][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.473][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.473][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.475][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.476][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.477][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.479][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.480][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.481][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.482][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.484][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.484][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.487][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.487][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.488][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.489][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.490][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.491][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.492][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.493][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.495][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.496][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.499][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.500][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.501][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.505][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.505][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.508][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.510][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.511][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.514][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.514][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.516][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.516][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.517][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.518][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.519][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.520][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.521][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.522][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.523][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.524][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.525][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.528][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.528][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.531][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.531][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:02.532][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:02.533][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.534][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.535][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.536][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.537][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.538][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.542][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.545][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.545][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.546][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.548][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.549][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.551][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.551][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.552][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.554][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.555][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.556][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.557][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.558][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.560][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.562][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.565][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.566][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:02.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.576][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.579][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.606][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.644][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.647][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.662][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.666][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.669][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.675][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2024-11-16 16:08:02.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:02.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:02.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:02.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:02.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:02.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:02.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:02.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.691][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.694][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.722][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.725][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.741][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.759][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.760][private$selectFields]
biodb.TRACE[2024-11-16 16:08:02.760][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:02.761][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:02.762][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:02.763][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.763][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.765][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.766][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.767][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.768][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.772][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.774][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.785][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.785][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.788][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.790][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.791][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.792][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.793][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.794][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.798][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.805][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.806][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.807][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.808][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.812][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.813][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.814][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.815][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.816][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.817][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.818][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.822][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.823][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.828][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.830][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.832][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.833][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:02.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.835][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.837][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.838][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.839][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.840][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.841][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.842][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.844][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.846][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.850][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:02.851][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:02.852][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.852][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.854][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.855][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.857][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.858][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.860][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.860][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.861][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.863][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.864][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.864][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.872][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.874][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.875][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.878][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.881][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.881][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.883][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.883][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.886][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.887][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.887][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.889][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.890][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:02.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:02.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:02.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.903][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.905][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:02.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:02.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.920][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.923][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:02.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:02.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:02.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:02.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:02.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:02.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:02.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.971][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:02.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:02.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:02.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.986][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.989][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:02.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:02.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:02.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:02.996][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:08:02.997][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:08:02.998][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:08:03.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:08:03.014][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:03.016][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:03.017][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-16 16:08:03.018][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:03.019][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-16 16:08:03.022][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:03.024][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:03.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-16 16:08:03.026][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:03.027][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-16 16:08:03.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:03.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:03.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:03.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:03.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:03.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:03.082][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:08:03.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:03.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.099][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.111][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.115][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.139][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.154][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.158][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.167][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.173][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.176][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.179][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.179][private$selectFields]
biodb.TRACE[2024-11-16 16:08:03.180][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:03.181][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:03.181][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.182][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.184][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.185][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.186][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.187][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.190][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.191][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.194][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.196][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.197][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.197][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.199][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.200][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.202][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.202][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.203][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.204][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.206][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.208][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.208][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.209][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.211][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.211][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.213][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.214][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.215][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.217][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.217][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.218][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.219][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.220][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.221][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.223][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.223][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.224][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.227][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.229][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.229][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.234][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.235][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.238][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.239][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.241][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.241][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.243][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.244][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.247][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.247][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.249][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.252][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.253][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.254][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.255][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.256][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.256][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.258][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.259][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.259][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.260][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.263][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.263][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.264][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.266][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.269][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.270][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.273][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.276][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.278][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.279][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.282][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.283][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.288][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.289][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.290][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.291][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.292][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.293][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.294][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.295][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.296][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.297][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:03.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.307][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.310][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.313][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.331][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.357][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.360][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.391][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.406][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.409][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.416][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:08:03.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:03.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.432][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.435][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.443][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.452][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.461][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.464][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.478][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.497][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.499][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.503][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.503][private$selectFields]
biodb.TRACE[2024-11-16 16:08:03.504][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:03.505][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:03.505][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.506][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.507][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.508][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.509][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.510][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.511][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.515][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.516][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.518][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.519][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.520][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.521][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.523][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.524][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.525][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.526][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.527][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.528][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.529][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.530][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.532][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.533][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.535][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.536][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.537][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.538][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.539][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.539][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.542][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.543][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.544][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.545][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.545][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.547][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.549][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.550][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.554][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.554][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.556][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.557][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.557][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.559][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.560][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.562][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.562][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.563][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.565][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.566][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.566][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.568][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.569][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.571][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.572][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.574][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.575][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.576][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.577][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.580][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.581][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.582][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.583][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.584][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.585][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.586][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.586][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.588][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.588][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.589][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.591][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.595][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.595][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.597][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.598][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.600][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.601][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.603][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.604][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.606][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.606][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.607][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.608][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.610][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.611][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.612][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.613][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.614][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.615][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.616][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.617][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.618][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.619][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.620][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.621][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:03.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.635][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.641][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.653][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.656][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.665][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.680][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.686][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.707][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.710][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.716][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.724][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.728][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.730][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.737][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-11-16 16:08:03.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:03.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:03.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:03.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:03.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:03.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:03.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:03.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.753][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.756][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.768][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.783][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.785][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.800][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.812][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.819][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.821][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.824][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.825][private$selectFields]
biodb.TRACE[2024-11-16 16:08:03.826][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:03.827][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:03.827][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:03.828][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.831][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.832][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.837][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.837][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.838][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.840][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.844][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.845][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.847][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.849][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.852][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.855][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.856][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.858][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.858][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.860][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.864][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.864][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.865][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.871][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.872][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.873][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.875][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.876][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.881][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.883][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.884][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.885][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.886][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.887][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.887][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.889][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.890][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:03.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.893][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.893][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.895][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.895][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.897][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.898][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.899][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.900][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.901][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.902][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.904][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.906][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.907][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.908][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:03.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.909][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.910][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:03.910][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:03.911][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.912][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.914][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.914][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.915][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.916][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.920][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.921][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.922][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.923][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.925][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.926][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.926][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.928][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.929][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.931][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:03.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.934][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.934][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:03.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.937][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:03.938][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:03.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:03.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:03.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.942][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.943][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:03.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:03.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:03.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.953][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.956][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.959][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:03.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:03.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:03.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:03.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:03.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:03.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:03.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:03.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:03.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:03.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:03.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.017][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.019][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.041][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:08:04.049][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:08:04.049][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:08:04.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:08:04.062][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:04.064][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:04.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-11-16 16:08:04.066][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:04.067][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-11-16 16:08:04.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:04.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:04.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:04.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:04.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:04.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:04.128][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:08:04.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:04.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.143][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.146][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.158][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.172][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.175][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.193][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.201][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.207][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.210][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.213][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.214][private$selectFields]
biodb.TRACE[2024-11-16 16:08:04.214][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:04.215][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:04.216][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.217][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.218][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.219][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.220][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.220][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.222][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.225][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.226][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.226][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.228][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.228][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.229][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.231][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.232][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.234][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.237][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.237][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.242][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.243][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.244][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.246][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.247][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.250][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.251][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.252][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.253][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.255][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.258][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.259][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.261][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.262][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.263][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.264][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.265][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.267][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.268][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.270][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.272][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.276][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.277][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.278][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.280][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.282][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.283][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.285][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.290][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.291][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.291][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.293][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.294][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.294][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.295][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.296][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.297][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.298][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.299][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.300][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.301][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.303][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.304][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.306][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.307][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.308][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.309][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.312][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.312][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.313][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.315][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.316][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.317][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.318][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.321][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.322][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.323][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.324][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.327][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.328][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.330][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.330][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.340][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.343][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.346][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.358][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.369][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.390][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.396][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.417][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.423][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.440][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.448][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:08:04.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:04.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.466][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.523][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.526][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.532][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.535][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.536][private$selectFields]
biodb.TRACE[2024-11-16 16:08:04.537][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:04.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:04.538][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.539][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.541][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.542][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.543][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.544][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.545][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.546][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.548][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.549][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.550][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.551][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.556][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.560][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.561][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.562][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.563][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.565][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.566][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.566][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.568][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.569][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.569][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.571][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.572][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.572][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.574][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.574][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.575][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.577][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.578][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.579][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.580][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.581][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.582][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.583][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.584][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.586][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.586][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.590][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.592][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.593][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.593][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.595][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.596][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.596][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.598][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.598][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.599][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.601][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.602][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.604][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.604][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.605][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.607][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.627][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.630][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.630][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.631][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.633][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.633][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.634][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.635][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.636][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:04.637][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:04.638][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.640][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.642][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.644][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.646][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.647][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.649][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.651][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.652][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.653][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.655][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.655][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.656][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.658][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.659][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.661][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.662][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.663][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.664][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.665][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.666][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.667][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.669][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.670][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:04.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.680][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.686][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.743][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.746][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.753][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.765][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.768][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.776][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:08:04.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:04.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:04.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:04.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:04.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:04.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:04.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:04.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.791][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.803][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.806][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.820][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.824][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.838][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.854][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.857][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.860][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.863][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.864][private$selectFields]
biodb.TRACE[2024-11-16 16:08:04.865][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:04.865][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:04.866][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:04.867][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.868][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.869][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.870][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.871][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.884][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.888][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.890][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.890][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.891][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.893][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.894][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.895][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.896][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.897][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.898][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.899][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.899][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.901][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.902][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.904][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.904][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.905][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.913][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.914][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.915][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.916][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.917][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.919][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.920][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.921][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.922][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.923][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.925][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.928][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.929][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.930][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.931][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.932][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.933][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.935][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.936][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.937][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:04.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.940][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.941][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.942][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.942][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.943][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.945][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.946][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.948][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.951][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.952][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.954][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.955][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:04.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.957][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:04.958][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:04.959][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.961][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.962][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:04.962][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:04.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.964][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:04.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.967][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.968][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:04.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:04.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.970][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:04.971][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:04.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.973][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.974][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:04.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.975][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.976][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:04.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.978][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.979][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.980][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:04.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.981][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.982][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.983][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:04.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.984][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.985][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:04.986][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:04.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.987][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.988][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:04.989][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:04.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.990][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.991][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:04.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:04.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:04.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:04.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:04.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.000][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.004][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.006][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.019][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.065][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.068][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.071][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.083][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.086][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.096][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2024-11-16 16:08:05.097][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:08:05.097][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-11-16 16:08:05.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-16 16:08:05.110][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-16 16:08:05.112][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-16 16:08:05.113][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-11-16 16:08:05.114][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-16 16:08:05.115][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-11-16 16:08:05.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:05.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:05.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:05.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:05.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:05.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-16 16:08:05.175][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-16 16:08:05.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:05.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.191][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.194][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.203][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.206][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.221][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.223][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.241][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.250][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.256][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.263][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.263][private$selectFields]
biodb.TRACE[2024-11-16 16:08:05.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:05.265][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:05.265][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.269][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.275][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.278][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.278][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.279][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.282][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.285][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.288][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.288][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.290][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.293][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.294][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.295][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.296][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.297][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.299][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.301][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.302][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.303][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.304][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.305][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.306][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.308][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.309][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.310][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.311][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.314][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.315][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.316][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.317][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.319][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.320][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.322][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.323][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.325][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.327][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.327][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.329][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.331][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.332][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.333][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.334][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.335][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.336][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.337][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.338][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.340][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.341][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.342][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.343][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.344][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.345][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.346][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.346][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.347][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.348][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.349][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.350][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.352][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.352][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.355][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.355][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.356][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.358][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.358][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.359][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.361][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.363][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.364][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.365][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.367][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.368][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.370][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.373][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.374][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.376][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.377][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.377][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.382][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.387][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.397][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.401][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.442][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.445][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.470][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.472][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.476][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.488][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.491][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.501][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2024-11-16 16:08:05.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:05.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.520][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.547][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.550][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.565][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.568][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.574][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.586][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.589][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.590][private$selectFields]
biodb.TRACE[2024-11-16 16:08:05.591][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:05.592][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:05.592][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.593][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.594][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.595][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.596][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.597][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.598][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.601][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.602][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.604][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.605][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.606][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.607][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.608][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.614][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.615][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.616][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.618][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.619][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.620][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.621][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.622][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.623][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.625][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.626][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.627][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.629][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.630][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.636][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.637][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.639][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.639][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.640][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.642][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.643][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.645][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.645][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.651][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.652][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.653][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.657][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.658][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.659][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.660][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.662][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.663][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.664][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.665][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.668][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.669][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.669][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.671][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.672][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.674][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.675][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:05.675][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:05.676][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.677][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.678][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.679][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.682][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.685][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.686][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.687][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.688][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.688][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.690][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.691][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.691][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.694][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.695][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.696][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.697][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.699][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.700][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.702][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.703][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.703][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.705][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.706][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.707][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.708][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:05.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.718][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.721][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.742][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.782][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.784][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.788][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.800][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.803][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.806][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.813][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2024-11-16 16:08:05.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-16 16:08:05.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:05.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:05.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:05.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:05.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:05.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-16 16:08:05.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.829][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.832][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.840][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.844][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.859][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.862][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.876][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.884][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.899][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.902][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.905][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.906][private$selectFields]
biodb.TRACE[2024-11-16 16:08:05.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-16 16:08:05.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-16 16:08:05.908][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-11-16 16:08:05.908][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.909][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.910][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.911][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.912][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.913][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.916][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.917][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.918][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.920][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.921][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.922][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.923][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.923][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.925][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.925][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.926][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.928][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.929][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.931][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.934][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.935][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.937][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.937][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.938][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.943][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.944][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.946][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.946][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.949][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.950][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.954][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.955][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.958][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.958][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.961][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.961][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:05.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.963][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.963][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-16 16:08:05.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.965][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.966][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.967][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:05.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.968][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:05.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.971][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.972][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.973][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:05.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.974][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.975][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:05.976][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:05.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.977][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.978][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:05.979][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:05.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.981][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.981][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-11-16 16:08:05.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.983][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.984][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:05.985][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-11-16 16:08:05.986][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:05.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:05.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.988][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.989][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:05.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:05.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.991][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:05.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.993][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.994][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:05.995][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:05.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:05.997][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:05.997][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:05.998][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:05.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.000][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.001][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.003][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.003][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.004][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.005][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.006][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.007][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.008][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.009][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.011][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.012][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:06.013][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:06.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.014][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.015][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:06.016][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:06.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.017][ef$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.018][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-11-16 16:08:06.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:06.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:06.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:06.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:06.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-16 16:08:06.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-16 16:08:06.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.028][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:06.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:06.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.031][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:06.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:06.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.034][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-16 16:08:06.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-16 16:08:06.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:06.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:06.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:06.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-16 16:08:06.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-16 16:08:06.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.047][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:06.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:06.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:06.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:06.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.053][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-16 16:08:06.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-16 16:08:06.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:06.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:06.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:06.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:06.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-16 16:08:06.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-16 16:08:06.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-16 16:08:06.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-16 16:08:06.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-16 16:08:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.096][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.099][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-16 16:08:06.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:06.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:06.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:06.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:06.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-16 16:08:06.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-16 16:08:06.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:06.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:06.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:06.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:06.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.117][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-16 16:08:06.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-16 16:08:06.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2024-11-16 16:08:06.130][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-16 16:08:06.130][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-16 16:08:06.135][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:08:06.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:08:06.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.138][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:08:06.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:08:06.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-16 16:08:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-16 16:08:06.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-16 16:08:06.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-16 16:08:06.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-16 16:08:06.147][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-16 16:08:06.147][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-16 16:08:06.148][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-16 16:08:06.149][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-16 16:08:06.149][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-16 16:08:06.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-16 16:08:06.151][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-16 16:08:06.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-16 16:08:06.152][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-16 16:08:06.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 1388 ]
>
> proc.time()
user system elapsed
53.786 2.783 155.161
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
Running ‘testthat.R’
OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
* installing *source* package ‘biodbChebi’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)